Software Documentation Service

Explore software available on ACCESS Resources.

Software Installed on AI Description AI Tags AI Research Discipline AI Software Type Documentation, Uses, and more
7z Ookami 7-Zip is a file archiver with a high compression ratio. It supports several archive formats and can be used to compress and decompress files efficiently. File Archiver, Compression, Encryption General Archiver Documentation, Uses, and more
abaqus ACES
Expanse		 Abaqus is a software suite used for finite element analysis and computer-aided engineering simulations for a wide range of industrial applications. It provides powerful simulation capabilities to analyze the behavior of materials and structures under various conditions. Simulation, Finite Element Analysis, Computer-Aided Engineering, Materials Analysis Engineering & Technology Simulation Software Documentation, Uses, and more
abinit Bridges-2 Abinit is a first-principles simulation software for materials science, condensed matter physics, and related fields. It performs electronic structure calculations based on density functional theory (DFT) and many-body perturbation theory. Materials Science, Condensed Matter Physics, Electronic Structure Calculations Condensed Matter Physics, Physical Sciences Electronic Structure Calculation Documentation, Uses, and more
abseil ACES Abseil is an open-source collection of C++ code (compliant to C++11) designed to augment the C++ standard library. It provides a set of high-quality library code that is well tested, portable, and efficient for a wide range of purposes. C++ Library, Open Source, Cross-Platform General, Computer & Information Sciences Code Library Documentation, Uses, and more
absl-py ACES Documentation, Uses, and more
abyss ACES
Bridges-2		 ABySS (Assembly By Short Sequences) is a de novo, parallel, paired-end sequence assembler that is designed for large genomes and also works well on smaller genomes. Assembly, De Novo Assembly, Sequence Assembler, Large Genomes Biological Sciences Hpc Tool Documentation, Uses, and more
accelerate ACES Documentation, Uses, and more
actc ACES ACTC (Assembly, Clustering, and Transformation for Connected Components) is a software tool for finding connected components in large, distributed graphs. It is specifically designed to handle massive graphs efficiently. Graph Analytics, Connected Components, Distributed Computing Biology, Mathematics, Computer & Information Sciences Tool Documentation, Uses, and more
adios2 ACES
Stampede3		 ADIOS 2 (Adaptable Input/Output System) is a next-generation high-performance I/O middleware library that provides a simple, high-level interface for efficiently managing data on parallel storage systems. It is designed to address the increasing challenges of achieving high performance and scalability when dealing with I/O operations in large-scale scientific simulations and data processing applications. I/O Middleware, High-Performance Computing, Data Management, Parallel Computing Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
advisor KyRIC
Stampede3		 Advisor is a comprehensive software tool designed for optimizing HPC applications and maximizing performance on current and future HPC systems. It offers insights into performance bottlenecks, parallel patterns, and potential improvements. Hpc, Performance Optimization, Parallel Computing Engineering & Technology Performance Optimization Documentation, Uses, and more
ai-tools-gpu ACES Documentation, Uses, and more
aiohttp ACES aiohttp is an asynchronous HTTP client/server framework for Python. It allows for handling HTTP requests and responses in an asynchronous manner, making it ideal for building high-performance web applications. Python Library, Web Development, Asynchronous Programming Computer & Information Sciences Http Client/Server Framework Documentation, Uses, and more
aishell ACES Documentation, Uses, and more
alphafold ACES AlphaFold is a deep learning-based system developed by DeepMind to predict protein folding and 3D structure with high accuracy. Protein Folding, Structure Prediction, Deep Learning, Neural Networks Bioinformatics, Biological Sciences Web Application Documentation, Uses, and more
alphafold3 ACES Documentation, Uses, and more
alphapickle ACES Alphapickle is a Python library that provides tools and utilities for working with alpha factors and optimizing portfolio construction in quantitative finance. Python Library, Quantitative Finance, Alpha Factors, Portfolio Optimization Financial Engineering, Other Mathematics Data Analysis Documentation, Uses, and more
alphapulldown ACES Documentation, Uses, and more
alps Stampede3 Documentation, Uses, and more
alsa-lib ACES Advanced Linux Sound Architecture (ALSA) provides audio and MIDI functionality to the Linux operating system. alsa-lib is a library that provides an interface for programmers to access sound card capabilities. Linux, Audio, Library Computer & Information Sciences Audio Library Documentation, Uses, and more
amask Stampede3 Amask is a high-level molecular visualization program that is designed to create and manipulate atomic structures for research and educational purposes. It provides a user-friendly interface for visualizing complex molecular structures and interactions. Molecular Visualization, Atomic Structures, Molecular Modeling, Research Tool Biological Sciences Molecular Visualization Software Documentation, Uses, and more
amber ACES
Anvil		 Amber is a suite of highly extensible molecular simulation programs. It is designed for simulations of biomolecules such as proteins, nucleic acids, and carbohydrates, and can also be used for small molecules. Molecular Dynamics, Biomolecular Simulations, Quantum Chemistry Biochemistry & Molecular Biology, Biological Sciences Molecular Dynamics Documentation, Uses, and more
ambertools ACES
Anvil
Bridges-2		 AmberTools is a suite of software for molecular dynamics simulations, energy minimization, and trajectory analysis in the field of computational chemistry. It provides tools for the refinement and analysis of biomolecular structures. Molecular Dynamics, Computational Chemistry, Biomolecular Structure, Energy Minimization Biophysics, Biological Sciences Simulation Software Documentation, Uses, and more
amd uprof Anvil Documentation, Uses, and more
amdblis Anvil Amdblis is a computational software for analyzing and visualizing single-molecule data, particularly for biophysical studies. Computational Software, Data Analysis, Visualization Biophysics, Biological Sciences Computational Tool Documentation, Uses, and more
amdfftw Anvil An AMD optimized version of FFTW. FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for most applications.
Description Source: https://www.fftw.org/		 Mathematics Library Documentation, Uses, and more
amdlibflame Anvil AMD LIBFLAME is an open-source software library that provides a high-performance implementation of the dense linear algebra routines on CPUs. It aims to offer efficient and robust algebraic computations for numerical linear algebra applications. Linear Algebra, Numerical Computations, Performance Optimization Mathematics, Computer & Information Sciences Library Documentation, Uses, and more
amdlibm Anvil AMDlibm is a software library provided by AMD that offers mathematical functions specifically optimized for high performance on AMD processors. It provides a collection of mathematical functions designed to exploit the advanced features of AMD processors for enhanced numerical computation. Mathematics, Numerical Computation, Math Library Mathematics, Engineering & Technology Math Library Documentation, Uses, and more
amdscalapack Anvil ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines. It depends on external libraries including BLAS and LAPACK for Linear Algebra computations. Mathematics Library Documentation, Uses, and more
amduprof Delta
Expanse		 amduprof is a tool developed for profiling OpenCL applications on AMD GPUs. It provides insights into the performance of OpenCL kernels by analyzing memory access patterns, kernel occupancy, and compute unit utilization. Gpu Profiling, Opencl Profiler, Performance Analysis Computer Science, Computer & Information Sciences Tool Documentation, Uses, and more
anaconda Anvil
Jetstream2
Ookami		 Anaconda is a free and open-source distribution of Python and R programming languages for scientific computing, that aims to simplify package management and deployment. Data Science, Scientific Computing, Package Management, Python, R Informatics, Analytics & Information Science, Computer & Information Sciences Package Management Documentation, Uses, and more
anaconda2 Bridges-2 Anaconda2 is a free and open-source distribution of the Python and R programming languages for scientific computing, that aims to simplify package management and deployment. It includes over 720 open-source packages and is widely used for data science, machine learning, and scientific computing. Python Libraries, Conda Packages, Data Science, Scientific Computing, Machine Learning, Computational Software Computer & Information Sciences, Artificial Intelligence & Intelligent Systems Distribution Documentation, Uses, and more
anaconda3 ACES
Bridges-2
Delta
Expanse		 Anaconda is a free and open-source distribution of Python programming language for scientific computing that aims to simplify package management and deployment. It includes over 250 popular data science packages and their dependencies, making it a one-stop solution for Python programming in data science, machine learning, deep learning, and other related fields. Python, Data Science, Machine Learning, Deep Learning, Package Management Computer & Information Sciences Development Tools Documentation, Uses, and more
anadama2 ACES Documentation, Uses, and more
anicalculator ACES Documentation, Uses, and more
annovar ACES ANNOVAR is a powerful software tool designed to annotate genetic variants detected from diverse genomes. Genomics, Genetic Variation, Bioinformatics, Annotation Biology, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
ansys Bridges-2
Stampede3		 Ansys provides engineering simulation software used to predict how product designs will behave and how manufacturing processes will operate in real-world environments. The software enables engineers to simulate interactions of all disciplines like structural, fluids, heat transfer, electromagnetic, and systems engineering. Engineering, Simulation, Product Design Mechanical Engineering, Engineering & Technology Engineering Simulation Software Documentation, Uses, and more
ant ACES Ant is a build automation tool that is mainly used for Java projects. It automates the process of compiling and building Java applications, along with tasks such as testing and deployment. Automation, Java, Build Tool, Deployment Computer Science Tool Documentation, Uses, and more
antlr ACES ANTLR (ANother Tool for Language Recognition) is a powerful parser generator for reading, processing, executing, or translating structured text or binary files. Compiler, Parser Generator, Syntax Analysis, Code Generation Toolkit Documentation, Uses, and more
anvi'o Bridges-2 Documentation, Uses, and more
aocc ACES
Anvil
Bridges-2
Delta
Expanse
Jetstream2
Ookami		 The AMD Optimizing C/C++ Compiler (AOCC) is a high performance compiler suite with support for C, C++, and Fortran programming languages. Compiler, C, C++, Fortran, Optimization Computer & Information Sciences Service Documentation, Uses, and more
aocl Bridges-2 The Intel FPGA SDK for OpenCL (aocl) is a software development kit that allows developers to create high-performance FPGA-accelerated applications using OpenCL. It provides a framework for FPGA programming with OpenCL, enabling developers to leverage the parallel processing capabilities of FPGAs for accelerating their applications. Fpga, Opencl, Acceleration Mathematics, Engineering & Technology Compiler Documentation, Uses, and more
apbs ACES Documentation, Uses, and more
apptainer Jetstream2
Stampede3		 Apptainer is a tool for creating and managing containerized applications in a simplified and efficient manner. It provides a user-friendly interface for developers and system administrators to package, distribute, and deploy applications using containerization technology. Containerization, Application Management, Devops, Software Development Engineering & Technology Development Documentation, Uses, and more
apr ACES The Apache Portable Runtime (APR) is a software library that provides a predictable and consistent interface to underlying platform-specific implementations. Software Library, Cross-Platform Development, Operating System Abstraction Engineering & Technology Development Documentation, Uses, and more
apr-util ACES Apache Portable Runtime Utility Library (APR-util) provides a set of utility functions to support the Apache Portable Runtime core functionalities. It is a companion library to APR, extending the basic functionality of APR with additional features. Utility Library, Apache Portable Runtime, Support Library, Additional Features Library Documentation, Uses, and more
archspec ACES Archspec is a framework for detecting the architecture of a system and producing a structured representation of its features for further analysis and optimization. It aims to provide insights into the architectural characteristics of a computing system, helping developers understand and leverage these features for performance optimization and code generation. Architecture Detection, System Analysis, Performance Optimization, Code Generation Computer & Information Sciences Framework Documentation, Uses, and more
argobots ACES Documentation, Uses, and more
aria2 ACES
Expanse		 aria2 is a lightweight multi-protocol & multi-source command-line download utility. It supports HTTP/HTTPS, FTP, SFTP, BitTorrent and Metalink. Download Manager, Command-Line Tool, Multi-Protocol, Multi-Source, File Transfer Computer & Information Sciences, Other Computer & Information Sciences Download Manager Documentation, Uses, and more
arm Ookami Arm is a software development suite for building and debugging embedded applications on Arm-based devices. It provides tools for optimizing code for performance, debugging, and profiling applications for a wide range of Arm processors. Software Development, Embedded Applications, Debugging, Performance Optimization Engineering & Technology Compiler/Debugger Documentation, Uses, and more
arm-forge Expanse Arm Forge integrates Arm DDT for parallel debugging, Arm MAP for performance profiling, and Arm Performance Reports for summarizing application performance, supporting various parallel architectures like MPI, CUDA, and OpenMP. Toolkit Documentation, Uses, and more
arm-gnu-toolchain ACES The ARM GNU Toolchain is a collection of tools/libraries used to create applications for embedded ARM processors. It includes the GNU Compiler Collection (GCC) for compiling C/C++ code, GNU Binutils for creating/executing binary files, and GDB for debugging. Compiler, Embedded Systems, Arm Processor, Toolchain Engineering & Technology Compiler Documentation, Uses, and more
arm-gnu-toolchaint ACES Documentation, Uses, and more
arm-modules Ookami Documentation, Uses, and more
armadillo ACES
Delta		 Armadillo is a high-quality linear algebra library for the C++ programming language. It aims to provide efficient and easy-to-use classes for common linear algebra operations, with a particular focus on real and complex matrices and vectors. Linear Algebra, C++ Library Computer Science, Computer & Information Sciences Linear Algebra Library Documentation, Uses, and more
arpack Stampede3 ARPACK is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems. It is capable of solving complex, real, symmetric, and nonsymmetric eigenvalue problems across different fields of scientific computing. Computational Software, Linear Algebra, Eigenvalue Problems Applied Mathematics, Mathematics Library Documentation, Uses, and more
arpack-ng ACES
Anvil		 ARPACK (ARnoldi PACKage) is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems. The ARPACK-ng project is a re-implementation of the original ARPACK with the goal of improving its usability, maintainability, and performance across a wide range of modern hardware platforms. Linear-Algebra, Eigenvalue Problems, Sparse Matrices, Iterative Methods, Computational Physics, Computational Chemistry, Fortran Mathematics, Physical Sciences Library Documentation, Uses, and more
arriba Bridges-2 Arriba is a fast and accurate tool for gene fusion detection in RNA-Seq data. It can identify gene fusions, transcript fusions, and fusion transcript isoforms, providing detailed information on their structure. Software, Gene Fusion Detection, RNA-Seq, Transcriptome Analysis Genomics, Biological Sciences Tool Documentation, Uses, and more
arrow ACES Arrow is a cross-language development platform for in-memory data that specifies a standardized language-independent columnar memory format for flat and hierarchical data, organized for efficient analytic operations on modern hardware like CPUs and GPUs. Data Processing, Data Analytics, In-Memory Data, Standardized Format Memory Efficiency, Computer & Information Sciences Development Platform Documentation, Uses, and more
arrow-r ACES Arrow-R is an open-source statistical computing and graphics software program based on the R programming language. It provides advanced statistical analysis, data visualization, and modeling capabilities for researchers and statisticians. Statistical Computing, Data Visualization, Statistical Modeling, R Programming Statistics & Probability, Mathematics Statistical Software Documentation, Uses, and more
asciinema Bridges-2 asciinema is a free and open-source solution for recording terminal sessions and sharing them on the web. It allows users to record their terminal sessions and playback the recordings directly in a terminal emulator. Terminal Recording, Web Sharing, Cli Tool Computer & Information Sciences Terminal Recorder Documentation, Uses, and more
ase ACES Atomistic Simulation Environment (ASE) is a set of tools and Python modules for setting up, manipulating, running, visualizing, and analyzing atomistic simulations. Computational Software, Python Library, Molecular Simulations Chemistry, Other Natural Sciences Tool Documentation, Uses, and more
aspera connect Bridges-2 Documentation, Uses, and more
assimp ACES Open Asset Import Library (short name: Assimp) is a portable Open Source library to import various well-known 3D model formats in a uniform manner. The most recent version also knows how to export 3D files and is therefore called Assimp. The library provides a C++ interface. There are also bindings for various other languages available. Assimp aims to provide a full asset conversion pipeline for use in game engines or real-time rendering systems 3D Models, Asset Import, Game Development File Loading, Computer & Information Sciences 3D Modeling/Rendering Documentation, Uses, and more
at-spi2-atk ACES at-spi2-atk is the Assistive Technology Service Provider Interface (AT-SPI) for the ATK toolkit, which allows assistive technologies to interact with graphical user interfaces. Assistive Technology, Accessibility, User Interface General, Computer & Information Sciences Interface Documentation, Uses, and more
at-spi2-core ACES AT-SPI (Assistive Technology Service Provider Interface) is a protocol that allows assistive technologies to interact with and control applications. Accessibility, Assistive Technology, Gui Applications General, Computer Science Library Documentation, Uses, and more
atk ACES The Amsterdam Modeling Suite (AMS) offers a comprehensive set of programs for computational chemistry. One of the key components is the Atomistix ToolKit (ATK) for quantum mechanical and classical atomistic simulations of materials. Computational Chemistry, Materials Science, Quantum Mechanics, Molecular Dynamics Physical Sciences Simulation Software Documentation, Uses, and more
atop Delta Atop is an advanced interactive system monitor that includes a variety of functionalities for monitoring and analyzing system performance. It provides a real-time overview of system performance, resource utilization, and process activity. System Monitor, Performance Analysis, Resource Utilization, Process Activity, System Statistics General, Computer & Information Sciences System Monitoring Tool Documentation, Uses, and more
atp Delta
DeltaAI		 ATP (Adenosine triphosphate) is a molecule that carries energy within cells. It is considered the energy currency of life and is involved in various cellular processes. Biology, Biochemistry, Cellular Processes Biochemistry & Molecular Biology, Biological Sciences Analytical Tool Documentation, Uses, and more
attr ACES Documentation, Uses, and more
attrdict3 ACES attrdict3 is a Python library that provides a dictionary-like object that allows accessing keys like attributes, providing a more convenient way to work with nested dictionaries. Python Library, Dictionary Wrapper Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
augustus ACES
Bridges-2		 Augustus is a gene prediction software for eukaryotes that uses a probabilistic model to predict genes on genomic sequences. It is widely used in bioinformatics to identify coding regions in DNA sequences. Gene Prediction, Eukaryotes, Bioinformatics Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
autoconf ACES
DeltaAI
KyRIC
Stampede3		 Autoconf is a tool for producing configure scripts for building, installing, and packaging software on Unix-like systems. It assists in the process of automating the configuration of software packages and generating portable makefiles. Build Automation, Software Configuration, Makefiles General, Engineering & Technology Build Tools Documentation, Uses, and more
autoconf-archive KyRIC The GNU Autoconf Archive is a collection of more than 500 macros for GNU Autoconf that have been contributed as free software by friendly supporters of the cause from all over the Internet. Every single one of those macros can be re-used without imposing any restrictions whatsoever on the licensing of the generated configure script.
Description Source: https://github.com/autoconf-archive/autoconf-archive		 General Service Documentation, Uses, and more
autodock Anvil AutoDock is a suite of automated docking tools designed to predict how small molecules, such as substrates or drug candidates, bind to a receptor of known 3D structure. Computational Chemistry, Molecular Docking, Virtual Screening Biology, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
autodock-gpu ACES AutoDock-GPU is a molecular modeling tool that allows for molecular docking simulations to predict the binding modes of small molecules with biomacromolecules. It utilizes GPU acceleration to significantly speed up the docking process. Molecular Modeling, Molecular Docking, Biomolecular Interactions, Gpu Acceleration Bioinformatics, Biological Sciences Simulation Software Documentation, Uses, and more
autodock-vina ACES AutoDock Vina is an open-source program for doing molecular docking. AutoDock Vina is one of the docking engines of the AutoDock Suite. Biology Application Documentation, Uses, and more
automake ACES
DeltaAI
KyRIC
Stampede3		 Automake is a build automation tool that automatically generates makefiles for software compilation. Build Automation, Software Development, Compilers General, Engineering & Technology Compiler Documentation, Uses, and more
autotools ACES
Stampede3		 Autotools is a suite of programming tools designed to assist in making source code packages portable across different Unix-like systems. It includes autoconf, automake, libtool, and others and is commonly used in open-source software projects. Programming, Software Development, Build Automation Software Engineering, Systems & Development, Computer & Information Sciences Build Automation Documentation, Uses, and more
avogadro2 ACES Documentation, Uses, and more
aws-cli Delta
DeltaAI		 The AWS Command Line Interface (CLI) is a unified tool to manage AWS services from the command line. With just one tool to download and configure, you can control multiple AWS services from the command line and automate them through scripts. Aws, Command Line Interface, Cloud Management General, Computer & Information Sciences, Engineering & Technology Command Line Tool Documentation, Uses, and more
aws-cli tool Anvil Documentation, Uses, and more
awscli ACES The AWS Command Line Interface (CLI) is a unified tool that provides a consistent interface for interacting with various Amazon Web Services (AWS) through the command line. It allows users to manage AWS services and resources directly from the terminal. Cloud Computing, Command Line Interface, Aws Services General, Computer & Information Sciences Development Tool Documentation, Uses, and more
bamtools ACES
Anvil
Bridges-2
Delta		 BamTools is a software toolkit for manipulating BAM (Binary Alignment Map) files. It provides both a C++ API for BAM file input and output, and a command-line tool for performing various operations on BAM files. Bioinformatics, Bam Files, Sequence Alignment, Toolkit Biology, Biological Sciences Toolkit Documentation, Uses, and more
banner Delta Banner is a comprehensive administrative software solution designed for higher education institutions to manage student information, academic records, financial aid, human resources, and other key administrative functions. Administrative Software, Higher Education, Student Information System, Academic Records, Financial Aid Management, Human Resources Management General, Social Sciences Commercial Documentation, Uses, and more
bar Stampede3 Documentation, Uses, and more
bat Bridges-2 BAT (Bioinformatics Analysis Tool) is a bioinformatics software suite designed for the analysis of biological sequence data. Bioinformatics, Computational Biology Genetics, Biological Sciences Analysis Tool Documentation, Uses, and more
bazel ACES
Bridges-2		 Bazel is a build tool that helps to build and test software of any size, quickly and reliably. Build Tool, Software Testing, Dependency Management, Resource Management General, Engineering & Technology Build & Testing Tools Documentation, Uses, and more
bazelisk ACES Documentation, Uses, and more
bbmap ACES
Bridges-2		 BBMap is a fast and accurate short-read aligner for mapping DNA sequences to a reference genome. It also includes various bioinformatics tools for sequence alignment, mapping, assembly, and analysis. Bioinformatics, DNA Sequencing, Sequence Alignment Genomics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
bcftools ACES
Bridges-2
Delta		 bcftools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart (BCF). It provides functionality for filtering, viewing, converting, and annotating variant data. Variant Calling, Genomics, Bioinformatics Genomics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
bcl2fastq2 Delta Documentation, Uses, and more
bcrypt ACES Documentation, Uses, and more
bdftopcf DeltaAI Documentation, Uses, and more
beagle Anvil
Delta		 Beagle is a high-performance software library for phylogenetic inference using maximum likelihood methods. It can be used for reconstructing large phylogenetic trees from molecular sequence data with high efficiency and accuracy. Phylogenetic Inference, Maximum Likelihood, Molecular Sequence Data, Parallel Processing, Likelihood Calculations Genetics, Biological Sciences Library Documentation, Uses, and more
beast2 Anvil BEAST2 is a cross-platform program for Bayesian evolutionary analysis of molecular sequences. It is widely used for estimating species trees, gene trees, divergence times, substitution rates, and demographic parameters using various models of sequence evolution. Phylogenetics, Evolutionary Analysis, Molecular Sequences, Bayesian Inference Ecology, Biological Sciences Tool Documentation, Uses, and more
beautifulsoup ACES Beautiful Soup is a Python library for pulling data out of HTML and XML files. It works with your favorite parser to provide idiomatic ways of navigating, searching, and modifying the parse tree.
Description Source: https://www.crummy.com/software/BeautifulSoup/bs4/doc/		 General Library Documentation, Uses, and more
bedops Bridges-2 BEDOPS is a suite of tools for flexible and highly efficient genomic data analysis. It provides a wide range of operations for working with genomic data, such as set operations, comparisons, and statistical calculations. Genomic Data Analysis, Bioinformatics, Computational Biology, Genomics, Data Analysis Bioinformatics, Biological Sciences Command-Line Tool Documentation, Uses, and more
bedtools ACES
Bridges-2		 Bedtools is a software suite for the comparison, manipulation, and annotation of genomic features in multiple formats. Bioinformatics, Genomics, Data Analysis, Tool Biology, Biological Sciences Application Documentation, Uses, and more
bedtools2 Delta Bedtools2 is a powerful suite of tools for manipulating genomic features and annotations. It allows users to perform a wide range of tasks on genomic intervals, such as intersecting, merging, comparing, and analyzing BED, GFF, VCF, and other common genomic file formats. Genomic Data Analysis, Bed Files, Bioinformatics Biology, Biological Sciences Tool Documentation, Uses, and more
benchmark ACES Documentation, Uses, and more
berkeley-db Anvil
DeltaAI
KyRIC		 Berkeley DB is a family of embedded key-value database libraries providing scalable high-performance data management services to applications.
Description Source: https://docs.oracle.com/database/bdb181/		 Storage, Hpc Applications Library Documentation, Uses, and more
bindcraft ACES Documentation, Uses, and more
binutils ACES Binutils is a collection of binary tools, including linker (ld), assembler (as), archiver (ar), and other tools to manipulate object files and executables. Binary Tools, Linker, Assembler, Object Files General, Computer & Information Sciences System Software Documentation, Uses, and more
bio-searchio-hmmer ACES Documentation, Uses, and more
biocontainers Anvil
Stampede3		 BioContainers is a project that provides bioinformatics tools and workflows in a containerized format, making it easier to package, distribute, and run bioinformatics software in a reproducible manner. Bioinformatics, Containers, Reproducibility, Software Packaging, Workflow Management Biology, Biological Sciences Containerization Documentation, Uses, and more
bioformats Bridges-2 Bioformats is a software library that provides reading and writing support for a wide range of biological data formats. It aims to simplify the access and integration of diverse image data types in scientific research. Bioinformatics, Imaging, Biological Data, Data Formats Biology, Biological Sciences Library Documentation, Uses, and more
biom-format ACES BIOM (Biological Observation Matrix) format is a unified format to store biological sequence data, sample data, and observed taxonomic units. It provides a standard mechanism to represent, store, and share data generated by different high-throughput technologies such as marker gene surveys. Biological Data, High-Throughput Technologies, Data Sharing Bioinformatics, Biological Sciences Data Management Tool Documentation, Uses, and more
bioperl ACES BioPerl is a collection of Perl modules that provide an easy-to-use and comprehensive toolkit for bioinformatics tasks. It is specifically designed to assist biologists in writing code to analyze biological data and perform various bioinformatics tasks. Bioinformatics, Computational Biology, Sequence Analysis, Perl Genetics, Biological Sciences Library Documentation, Uses, and more
biopython ACES Biopython is a set of freely available tools for biological computation written in Python. It provides functionalities for molecular biology, bioinformatics, structural bioinformatics, and computational biology. Biological Computation, Bioinformatics, Computational Biology, Molecular Biology, Structural Bioinformatics Bioinformatics, Biological Sciences Python Library Documentation, Uses, and more
bismark Anvil
Bridges-2		 Bismark is a software tool specifically designed for aligning bisulfite treated DNA sequencing reads and methylation calls. It is widely used in epigenetics research to analyze DNA methylation patterns. Epigenetics, DNA Methylation, Bisulfite Sequencing, Genomics, Bioinformatics Genomics, Biological Sciences Alignment & Methylation Analysis Documentation, Uses, and more
bison ACES
DeltaAI
Ookami
Stampede3		 Bison is a general-purpose parser generator that converts a grammar description for an LALR context-free grammar into a C program to parse that grammar. It is part of the GNU Project. Parser Generator, Programming Language Tool General, Computer & Information Sciences Parser Generator Documentation, Uses, and more
bitsandbytes ACES Documentation, Uses, and more
blacs Ookami The Basic Linear Algebra Communication Subprograms (BLACS) is a collection of routines for dense linear algebra operations that can be used to construct parallel linear algebra software libraries. BLACS is typically used in high-performance computing environments to efficiently solve large-scale linear algebra problems in parallel. Linear Algebra, High-Performance Computing, Parallel Computing Mathematics, Physical Sciences Computational Software Documentation, Uses, and more
blas Expanse
Ookami		 Documentation, Uses, and more
blast+ ACES
Bridges-2
Ookami		 BLAST+ (Basic Local Alignment Search Tool) is a suite of tools for performing similarity searches of nucleotide and protein databases. It is widely used for comparing biological sequences to identify homologous sequences and infer functional and evolutionary relationships. Bioinformatics, Computational Biology, Genomics, Sequence Analysis Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
blast-plus Anvil Blast+ allows users to perform BLAST searches on their own server without size, volume and database restrictions. BLAST+ can be used with a command line so it can be integrated directly into your workflow.
Description Source: https://blast.ncbi.nlm.nih.gov/doc/blast-help/downloadblastdata.html		 Biology Tool Documentation, Uses, and more
blat ACES
Bridges-2		 BLAT (BLAST-Like Alignment Tool) is a sequence analysis software used for comparing genomic DNA sequences to the human genome. It is particularly useful for finding regions of similarity between DNA sequences at the nucleotide level. Sequence Analysis, DNA Alignment, Genomic Analysis Biology, Biological Sciences Tool Documentation, Uses, and more
blender ACES
Delta		 Blender is a free and open-source 3D creation suite that supports the entire 3D pipeline – modeling, rigging, animation, simulation, rendering, compositing and motion tracking, even video editing and game creation. 3D Modeling, Computer Graphics, Animation, Simulation, Open-Source General, Engineering & Technology Visual Arts Software Documentation, Uses, and more
blis ACES
Anvil
Ookami
Stampede3		 BLAS (Basic Linear Algebra Subprograms) implemented in native C and suitable for high-performance implementations. BLIS is capable of achieving high levels of performance on various architectures. Blas, Linear Algebra, High Performance Computing, Optimization Mathematics, Computer & Information Sciences Computational Software Documentation, Uses, and more
blosc ACES Documentation, Uses, and more
blosc2 ACES Blosc2 is a high-performance, production-ready meta-compressor library that provides a simple way to accelerate data storage and retrieval. It focuses on optimizing the handling of large, multi-dimensional data, catering to both compression and decompression operations efficiently. High-Performance Computing, Compression, Data Storage, Optimization General, Computer & Information Sciences Compression Documentation, Uses, and more
bokeh ACES Bokeh is an interactive visualization library for modern web browsers. It provides elegant, concise construction of versatile graphics with high-performance interactivity over large or streaming datasets in a browser window. Visualization, Interactive Plots, Data Visualization General, Computer & Information Sciences Library Documentation, Uses, and more
boltz-1 ACES Documentation, Uses, and more
bonnie++ Expanse
Ookami		 Documentation, Uses, and more
boost ACES
Anvil
Bridges-2
Delta
Expanse
KyRIC
Ookami
Stampede3		 Boost is a set of C++ libraries that provides support for tasks and structures such as linear algebra, pseudorandom number generation, multithreading, image processing, regular expressions, and unit testing. It aims to extend the functionality of C++ programming language and make it more efficient and powerful. C++ Libraries, Programming Support, Efficiency Enhancement Computer Science, Software Engineering, Systems & Development, Computer & Information Sciences Development Tool Documentation, Uses, and more
boost.mpi ACES Boost.MPI is a peer-reviewed, free, open-source, portable, and fully-standard library implementation of the Message Passing Interface (MPI) for C++. Mpi, Parallel Computing, C++ Other Computer & Information Sciences, Computer & Information Sciences Middleware Documentation, Uses, and more
boost.python ACES Boost.Python is a library used for interfacing Python and C++. It enables seamless integration of C++ code with Python and provides tools to expose C++ classes, functions, and objects to Python scripts, and vice versa. C++, Python, Integration, Library Mathematics, Computer & Information Sciences Library Documentation, Uses, and more
boto3 ACES Documentation, Uses, and more
bowtie ACES
Delta		 Bowtie is a fast and memory-efficient short read aligner for short DNA sequences. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million reads per hour on a typical workstation with a large amount of memory. Bioinformatics, Genomics, DNA Sequencing, Sequence Alignment Genetics, Biological Sciences Alignment Tool Documentation, Uses, and more
bowtie2 ACES
Anvil
Bridges-2
Delta		 Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences. It is particularly well-suited for aligning sequencing reads of DNA sequences, such as those generated by high-throughput sequencing technologies. Alignment, Sequencing Reads, DNA Sequences, High-Throughput Sequencing, Bioinformatics, Genomics Bioinformatics, Biological Sciences Sequence Alignment Documentation, Uses, and more
brotli ACES Brotli is a generic-purpose lossless compression algorithm that compresses data using a combination of a modern variant of the LZ77 algorithm, Huffman coding, and 2nd order context modelling. It is developed by Google and designed to replace the zlib compression. Compression Algorithm, Lossless Compression, Data Compression General Tool Documentation, Uses, and more
brotli-python ACES brotli-python is a Python binding for the Brotli compression library. It allows users to compress and decompress data using the Brotli algorithm within Python applications. Compression, Data Compression, Brotli, Python Library Computer Science, Computer & Information Sciences Compression Library Documentation, Uses, and more
brunsli ACES Brunsli is an advanced lossless image compressor that focuses on high-speed encoding. It aims to achieve significant compression ratios while maintaining fast encoding and decoding speeds. Image Compression, Lossless Compression, High-Speed Encoding General, Computer & Information Sciences Image Compressor Documentation, Uses, and more
bsbolt ACES Documentation, Uses, and more
btllib ACES Documentation, Uses, and more
busco ACES
Bridges-2		 BUSCO (Benchmarking Universal Single-Copy Orthologs) is a software package that assesses genome assembly, gene set, and transcriptome completeness based on evolutionarily informed expectations of gene content. Genomics, Genome Assembly, Gene Set, Transcriptome, Orthologs Bioinformatics, Biological Sciences Tools Documentation, Uses, and more
bwa ACES
Anvil
Bridges-2		 Burrows-Wheeler Aligner (BWA) is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW, and BWA-MEM. The BWA-backtrack algorithm is designed for Illumina sequence reads up to 100bp, while BWA-SW and BWA-MEM are for longer Illumina reads, including 100bp reads produced by the HiSeq 2000 platform. Sequence Alignment, Bioinformatics, Genomics, Next-Generation Sequencing (Ngs) Biology, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
bwidget ACES Documentation, Uses, and more
byacc Expanse byacc is a public domain LALR parser generator which is often used as a replacement for yacc. LALR parsers are used in the generation of efficient parsers for modern programming languages. Parser Generator, Lalr, Context-Free Grammar General, Computer & Information Sciences Development Tool Documentation, Uses, and more
bzip2 ACES
Anvil
DeltaAI
Expanse
KyRIC		 bzip2 is a free and open-source file compression program that uses the Burrows-Wheeler algorithm for compression and Huffman coding for decompression. It is designed to be fast and efficient in compressing large files while retaining a high compression ratio. File Compression, Data Compression, Utility Software General, Computer & Information Sciences Compression Tool Documentation, Uses, and more
c-ares ACES c-ares is a C library that performs DNS requests and name resolutions asynchronously. It is designed to be lightweight and efficient, providing asynchronous DNS capabilities to applications. Dns, Asynchronous, Networking, Library, C General, Computer & Information Sciences Networking Documentation, Uses, and more
cairo ACES
Anvil
Delta
DeltaAI		 Cairo is a 2D graphics library with support for multiple output devices. It provides a vector-based rendering engine for high-quality graphics with full support for transparency and anti-aliasing. Graphics Library, 2D Graphics, Rendering Engine Graphics, Computer & Information Sciences Library Documentation, Uses, and more
caliper Ookami Documentation, Uses, and more
camus ACES Documentation, Uses, and more
cantera Stampede3 Documentation, Uses, and more
canu Bridges-2 Canu is a software tool that is used for assembling genomes using nanopore sequencing data. It is designed to be efficient and scalable, making it suitable for large and complex genomes. Genome Assembly, Nanopore Sequencing, Long-Read Sequencing, Bioinformatics Genomics, Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
capnproto ACES Documentation, Uses, and more
capstone ACES Capstone is a disassembly framework with the target of becoming the ultimate disasm engine for binary analysis and reversing in the security community. Created by Nguyen Anh Quynh, it is open-source software distributed under the Simplified BSD License. Disassembly, Binary Analysis, Reverse Engineering Computer Science, Computer & Information Sciences Tool Documentation, Uses, and more
captum ACES Captum is an extensible library for model interpretation in PyTorch. It provides a flexible and unified API for different interpretability methods and allows users to easily interpret deep learning models. Interpretability, Model Interpretation, Deep Learning, Pytorch Artificial Intelligence, Machine Learning, Computer & Information Sciences Model Interpretation Documentation, Uses, and more
cartopy ACES Cartopy is a Python package designed for geospatial data processing to produce high-quality visualizations of maps using matplotlib. It aims to simplify and enhance the mapping capabilities in Python, providing rich, interactive, and customized maps for various scientific disciplines. Geospatial Data Processing, Data Visualization, Python Library, Mapping, Scientific Visualization Earth & Environmental Sciences, Physical Sciences Python Library Documentation, Uses, and more
catch ACES Documentation, Uses, and more
catch2 ACES
Stampede3		 Catch2 is a C++ testing framework that is easy to use, yet powerful. It supports test-driven development, behavior-driven development, and specification by example. Testing Framework, C++, Unit Testing Computer Science, Engineering & Technology Testing Framework Documentation, Uses, and more
ccache ACES ccache is a compiler cache tool designed to speed up C and C++ compilation by caching previous compilations. It acts as a caching proxy for compilers, storing compiled object files in a cache directory, which can be reused when the same compilation is done again. This reduces compilation times significantly, especially during iterative development processes. Compiler Cache, C/C++ Compilation, Build Optimization General, Engineering & Technology Compiler Utility Documentation, Uses, and more
ccdb Delta
DeltaAI		 CCDB (Cell Cycle Database) is a freely accessible, comprehensive resource for the cell cycle community. It provides information and tools to study cell cycle regulation and its role in cancer and other diseases. Cell Cycle, Cell Biology, Database Cell Biology, Biological Sciences Curated Data Resource Documentation, Uses, and more
cce Delta
DeltaAI		 Compiler Construction Engine (CCE) is a software tool used for building compilers and interpreters. It provides a set of tools and libraries to assist in the creation of programming language implementations. Compiler, Interpreter, Programming Language, Compiler Construction Computer Science, Computer & Information Sciences Compiler/Interpreter Documentation, Uses, and more
cce-mixed DeltaAI cce-mixed is a software package designed for performing calculations in the framework of many-body perturbation theory for the electronic structure of solids. It focuses on the GW approximation, self-energy calculations, and the solution of the Bethe-Salpeter equation for optical excitations. Computational Chemistry, Quantum Mechanics, Electronic Structure Calculations Condensed Matter Physics, Physical Sciences Electronic Structure Calculation Documentation, Uses, and more
ccl KyRIC CCL (Cpp Command Line Library) is a C++ library targeting Unix platform that makes it easy to define and parse command line arguments. It provides a simple and intuitive way to define and parse command-line arguments for C++ programs. Command Line Interface, C++ Library Documentation, Uses, and more
cd-hit ACES cd-hit is a widely used program for clustering and comparing protein or nucleotide sequences. It clusters a large set of sequences to reduce redundancy and generate a non-redundant representative set. This tool is beneficial for sequence analysis, especially in bioinformatics studies. Sequence Analysis, Clustering, Bioinformatics Bioinformatics, Biological Sciences Bioinformatics Software Documentation, Uses, and more
cdo ACES
Anvil
Delta
Stampede3		 Climate Data Operators (CDO) is a collection of command-line operators for manipulating and analyzing climate and numerical weather prediction (NWP) model data. Climate Data, Data Manipulation, Command Line, Data Analysis Earth & Environmental Sciences Command Line Tool Documentation, Uses, and more
cdsapi ACES cdsapi is a Python client library for Climate Data Store (CDS) API, which allows users to access climate and weather data provided by the European Centre for Medium-Range Weather Forecasts (ECMWF). Python Library, Climate Data, Weather Data Earth & Environmental Sciences Api Documentation, Uses, and more
cdtools Stampede3 Documentation, Uses, and more
cereal ACES Cereal is a C++11 library for serialization. It is designed to be fast, compact, and have an easy-to-use API. Serialization, C++, Library Computer & Information Sciences Data Serialization Documentation, Uses, and more
cesm-deps ACES CESM-DEPS is a set of dependencies and tools for supporting the Community Earth System Model (CESM) software. It includes various libraries, compilers, and software packages necessary for running CESM simulations. Dependencies, Cesm, Earth System Model, Simulation, Software Package Earth & Environmental Sciences Libraries & Dependencies Documentation, Uses, and more
cffi ACES CFFI is a Foreign Function Interface between Python and C. It allows calling C code from Python and using Python code from C. It provides a way to interact with foreign functions and call them from Python without having to write any C code. Foreign Function Interface, C Library Integration, Python Computer & Information Sciences Interfacing Documentation, Uses, and more
cfitsio ACES
Stampede3		 CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format. Astronomy, Data Processing, File Format, Fits Astronomy & Planetary Sciences, Physical Sciences Data Processing Documentation, Uses, and more
cgal ACES CGAL (Computational Geometry Algorithms Library) is a software library that provides a wide range of efficient and reliable geometric algorithms for use in various applications in computational geometry, such as mesh generation, geometric processing, visualization, and more. It is designed to be versatile, easy to use, and highly efficient. Computational Geometry, Geometric Algorithms, Software Library Computer Science, Computer & Information Sciences Algorithm Library Documentation, Uses, and more
cgns ACES The CFD General Notation System (CGNS) provides a standard for recording and recovering computer data associated with the numerical solution of the equations of fluid dynamics. It is designed to facilitate the exchange of data between sites and applications, as well as to help stabilize the archiving of fluid dynamics data. Computational Software Fluid & Plasma Physics, Physical Sciences File Format Documentation, Uses, and more
chameleon ACES Chameleon is a Python library for creating customizable color palettes for data visualization purposes. It provides a user-friendly interface to easily generate aesthetically pleasing color schemes for various types of visualizations. Python Library, Data Visualization, Color Palette, Visualization, Python Other Computer & Information Sciences Library Documentation, Uses, and more
chapel Ookami Chapel is an emerging parallel programming language developed by Cray Inc. specifically designed for productive high-performance computing (HPC). It is designed to improve the productivity of parallel programming and provide scalability and portability across various HPC platforms. Parallel Programming, Hpc, High-Performance Computing, Programming Language Computer & Information Sciences Compiler Documentation, Uses, and more
charliecloud Stampede3 Charliecloud is a software tool that provides user-defined software stacks in userspace with no privileged operations or daemons. It uses containers for software isolation and runs in user space, making it lightweight and secure. Containerization, Software Development, Research Tools Computer & Information Sciences Tool Documentation, Uses, and more
charmpp KyRIC Charm++ is a parallel programming framework in C++ supported by an adaptive runtime system, which enhances user productivity and allows programs to run portably from small multicore computers (your laptop) to the largest supercomputers. Documentation, Uses, and more
check ACES Check is a unit testing framework for C. It features a simple interface for defining unit tests, putting little in the way of the developer. Tests are run in a separate address space, so both assertion failures and code errors that cause segmentation faults or other signals can be caught.
Description Source: https://libcheck.github.io/check/		 Documentation, Uses, and more
checkm ACES
Bridges-2		 CheckM is a software tool for assessing the quality of microbial genomes recovered from isolates, single cells, or metagenomes. It provides robust statistical evaluation of genome completeness and contamination, as well as identification of marker genes for phylogenetic placement. Microbial Genomics, Genome Quality Assessment, Phylogenetic Analysis, Bioinformatics Ecology, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
checkm-database ACES Documentation, Uses, and more
chemprop ACES Chemprop is a deep learning-based tool for molecular property prediction. It allows users to train models to predict chemical properties and enables transfer learning to easily apply pre-trained models to new datasets. Chemoinformatics, Molecular Property Prediction, Deep Learning Chemical Sciences Bioinformatics Documentation, Uses, and more
chez-scheme Ookami Documentation, Uses, and more
chimerax ACES ChimeraX is a software tool for the visualization and analysis of molecular structures, density maps, and related data. It is widely used in the field of structural biology and computational chemistry for studying complex biomolecular systems. Molecular Visualization, Structural Biology, Computational Chemistry Bioinformatics, Biological Sciences Analysis & Visualization Tool Documentation, Uses, and more
cimfomfa ACES This library supports both MCL, a cluster algorithm for graphs, and zoem, a macro/DSL language. It supplies abstractions for memory management, I/O, associative arrays, strings, heaps, and a few other things. The string library has had heavy testing as part of zoem. Documentation, Uses, and more
circos Bridges-2 Circos is a software package for visualizing data in a circular layout. It is widely used in genomics and other biological sciences to create visual representations of complex datasets. Data Visualization, Genomics, Biological Sciences, Circular Layout Bioinformatics, Biological Sciences Visualization Tool Documentation, Uses, and more
cistem ACES CISTEM is a computational framework designed for the prediction of dual phase RNA secondary structures. Computational Framework, RNA Secondary Structures Prediction Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
ckdmip ACES CKDmip is a software for computing cosmic microwave background (CMB) radiation temperature anisotropies and polarization spectra using the Cosmic Microwave Background (CMB) perturbation code. Cosmic Microwave Background, Cmb Radiation, Temperature Anisotropies, Polarization Spectra Astronomy & Planetary Sciences, Physical Sciences Hpc Tool Documentation, Uses, and more
clang ACES Clang is a compiler front end for the C, C++, and Objective-C programming languages. It uses LLVM as its back end, providing highly optimized code generation. Clang is designed to provide fast compiles, expressive diagnostics, and a modular architecture for easy integration with other tools and libraries. Compiler, Software Development, Programming Languages Software Engineering, Systems & Development, Computer & Information Sciences Development Tool Documentation, Uses, and more
class Ookami Documentation, Uses, and more
clck KyRIC Documentation, Uses, and more
clhep ACES CLHEP (Class Library for High Energy Physics) is a library of C++ classes specifically designed for high energy physics (HEP) applications. It provides a set of utility classes for HEP-specific tasks, such as vectors, matrices, random number generation, and units of measurement. C++ Library, High Energy Physics, Hep Applications Physics, Physical Sciences Computational Tool Documentation, Uses, and more
climetlab ACES climetlab is a Python library designed for easy access, manipulation, and visualization of climate data. It aims to simplify the process of working with climate datasets by providing a unified interface and tools for data exploration. Python Library, Climate Data, Data Visualization Earth & Environmental Sciences Library Documentation, Uses, and more
clip ACES CLIP (Contrastive Language-Image Pretraining) is a framework for learning joint representations of images and text. It is designed to pretrain on large scale image-text datasets to learn a powerful visual-linguistic understanding. Machine Learning, Deep Learning, Image-Text Representation, Pretraining Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Deep Learning Documentation, Uses, and more
clusterbot Anvil Documentation, Uses, and more
cm-image Expanse
Ookami		 Documentation, Uses, and more
cm-pmix3 Expanse
Ookami		 cm-pmix3 is a lightweight, high-performance library that provides process management and control functions for large-scale computing environments. Process Management, High-Performance Computing, Job Scheduling Other Computer & Information Sciences, Engineering & Technology System & Process Management Documentation, Uses, and more
cm-scale Expanse
Ookami		 Documentation, Uses, and more
cm-setup Expanse
Ookami		 Documentation, Uses, and more
cmake ACES
Anvil
Delta
DeltaAI
Expanse
KyRIC
Ookami
Stampede3		 CMake is an open-source, cross-platform family of tools designed to build, test, and package software. It is used to control the software compilation process using simple platform and compiler-independent configuration files. Build System, Cross-Platform, Software Development Software Engineering, Systems & Development, Engineering & Technology Developer Tools Documentation, Uses, and more
cmd Expanse
Ookami		 The cmd module in Python provides a framework for building interactive command line applications. It allows developers to easily create command-line interfaces by defining a set of commands and their associated functions. Command Line, Python Module Computer & Information Sciences Framework Documentation, Uses, and more
cmjob Expanse
Ookami		 cmjob is a Python-based tool for computational materials science that aids in automating the submission of multiple jobs on high-performance computing clusters. It simplifies the process of handling multiple job submissions, tracking job statuses, and organizing job outputs. Hpc, Computational Materials Science, Python Library Documentation, Uses, and more
cmsh Expanse
Ookami		 Documentation, Uses, and more
coco ACES Documentation, Uses, and more
colabfold ACES ColabFold is a collaborative project that aims to bring together deep learning and biophysical modeling for protein structure prediction. It provides an easy-to-use interface for researchers to perform protein folding predictions using state-of-the-art techniques. Protein Structure Prediction, Deep Learning, Biophysical Modeling Bioinformatics, Biological Sciences Protein Structure Prediction Tool Documentation, Uses, and more
colorize ACES Documentation, Uses, and more
colossalai ACES ColossalAI is an open-source deep learning framework that focuses on large-scale distributed training and efficient model serving. It provides a unified platform for researchers and practitioners to build, train, and deploy deep learning models at scale. Deep Learning Framework, Large-Scale Training, Model Serving Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Open Source Documentation, Uses, and more
compiler KyRIC A compiler is a special program that processes statements written in a particular programming language and turns them into machine language or "code" that a computer's processor uses. It typically acts as a translator that converts high-level programming languages into machine language. Compiler, Software Development, Programming Computer & Information Sciences Compiler Documentation, Uses, and more
compiler-rt KyRIC compiler-rt stands for Compiler Runtime Library. It is a collection of runtime libraries that provide low-level support for compiler-generated code. It is designed to be used with the LLVM compiler infrastructure and is commonly used in conjunction with Clang. The compiler-rt libraries implement runtime parts of the language features that are not supported directly by the compiler. Runtime Library, Compiler Support, Low-Level Support, Language Features Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
compiler-rt32 KyRIC The compiler-rt32 project is a runtime library that provides functionality for compilers in the 32-bit architecture. It includes various runtime components such as sanitizers, builtins, and support libraries for handling memory operations and error detection. Compiler, Runtime Library, 32-Bit Architecture Computer Science, Computer & Information Sciences Runtime Library Documentation, Uses, and more
compiler32 KyRIC compiler32 is a lightweight and efficient compiler software designed for compiling source code into executable programs. It supports various programming languages and optimization techniques to enhance the performance of the compiled code. Compiler, Software Development, Programming Computer & Information Sciences Development Tools Documentation, Uses, and more
comsol Bridges-2 COMSOL is a platform for modeling and simulating physics-based systems. It offers a wide range of tools for multiphysics simulations, allowing users to analyze and optimize designs in various scientific and engineering fields. Simulation, Modeling, Physics, Engineering, Optimization Engineering & Technology Simulation Software Documentation, Uses, and more
conceptual captions 3 million (cc3m) ACES Documentation, Uses, and more
conda Anvil Conda is an open source package management system and environment management system for installing multiple versions of software packages and their dependencies and switching easily between them. It works on Linux, OS X and Windows, and was created for Python programs but can package and distribute any software. Description Source: https://github.com/conda-forge/conda-feedstock/blob/main/recipe/meta.yaml Documentation, Uses, and more
conda-env Delta Conda-env is a command-line tool that allows users to create, export, list, remove, and update conda environments. Conda is an open-source package management system and environment management system that runs on Windows, macOS, and Linux. Package Management, Environment Management Computer & Information Sciences Command Line Tool Documentation, Uses, and more
configurable-http-proxy ACES Documentation, Uses, and more
coordgenlibs ACES CoordGenLibs is a set of computational chemistry libraries and tools for generating 3D coordinates for small molecules. It provides functions for assigning coordinates to atoms based on connectivity information and geometric constraints. Computational Chemistry, 3D Coordinate Generation, Small Molecules Chemical Sciences Chemical Informatics Documentation, Uses, and more
cp2k ACES
Anvil
Bridges-2
Ookami
Stampede3		 CP2K is an open-source quantum chemistry and solid state physics software package designed to perform atomistic simulations of solid-state, liquid, molecular, and biological systems. It can be used to study a wide range of properties, including electronic structures, molecular dynamics, and vibrational spectra. Computational Chemistry, Quantum Mechanics, Molecular Dynamics Physical Sciences Molecular Simulation Documentation, Uses, and more
cpe Delta
DeltaAI
Ookami		 CPE (Common Platform Enumeration) is a standardized method to describe and identify classes of applications, operating systems, and hardware devices in a consistent format. It provides unique identifiers for these entities to facilitate accurate and efficient information exchange between different security tools and databases. Software Identification, Cybersecurity, Information Exchange Computer Science, Computer & Information Sciences Tool Documentation, Uses, and more
cpe-cuda Delta
DeltaAI		 Documentation, Uses, and more
cpe-nosve Ookami CPE-NOsvE (Canonical Polyadic Decomposition-based Network Observation for Structure Validation and Elucidation) is a computational tool for network structure elucidation and validation using canonical polyadic decomposition (CPD) analysis. It is designed to infer the underlying structure of complex networks from observed data, helping researchers better understand and validate network architectures. Computational Software, Network Analysis, Data Validation, Structure Elucidation Computer & Information Sciences Documentation, Uses, and more
cpio ACES Documentation, Uses, and more
cppunit ACES CppUnit is a C++ unit testing framework designed to assist in writing and running automated test suites for C++ code. It is based on the xUnit architecture and is similar in functionality to JUnit for Java. Unit Testing, C++ Computer & Information Sciences Library Documentation, Uses, and more
cppy ACES C++ embedded Python library to seamlessly interact with C++ and Python code within the same application. C++, Python, Embedded Python, Interoperability Computer & Information Sciences Integration Tool Documentation, Uses, and more
cpu Expanse CPU (Central Processing Unit) is a hardware component of a computer that executes instructions and performs calculations. It is considered the brain of the computer and is responsible for carrying out tasks and running applications. Hardware, Computing, Technology Computer & Information Sciences Component Documentation, Uses, and more
cray Ookami Cray is a supercomputing company well-known for its high-performance computing systems and solutions. Cray supercomputers are designed to handle complex computational tasks and large-scale scientific simulations. Supercomputing, High-Performance Computing, Scientific Computing Computer & Information Sciences Hpc Tool Documentation, Uses, and more
craype Delta
DeltaAI		 Documentation, Uses, and more
craype-accel Delta
DeltaAI		 Documentation, Uses, and more
craype-accel-ncsa Delta Documentation, Uses, and more
craype-x86 Delta
DeltaAI		 Documentation, Uses, and more
craypkg-gen Delta
DeltaAI		 Documentation, Uses, and more
crb-blast ACES Documentation, Uses, and more
cryosparc ACES CryoSPARC is a comprehensive software platform for cryo-EM data processing that enables high-resolution structure determination of biological macromolecules. Cryo-Em, Biological Macromolecules, Structural Biology, Data Processing Biophysics, Biological Sciences Cryo-Em Software Documentation, Uses, and more
cryptography ACES Cryptography is the practice and study of techniques for secure communication in the presence of third parties. It involves creating and analyzing protocols that prevent third parties or the public from reading private messages. Security, Privacy, Encryption, Decryption Computer & Information Sciences Software Documentation, Uses, and more
cryptsetup KyRIC cryptsetup is a utility used to conveniently set up disk encryption based on the Dm-crypt kernel module. It allows users to easily configure encrypted block devices using LUKS (Linux Unified Key Setup), manage cryptographic volumes, and interact with encrypted volumes. Disk Encryption, Data Security, Cryptography, Linux Computer & Information Sciences System Software Documentation, Uses, and more
ctffind ACES Documentation, Uses, and more
cti Delta
DeltaAI		 CTI (Common Threat Intelligence) is an open source library designed to parse and manipulate structured threat intelligence information. It provides a set of APIs to work with different threat intelligence data formats and supports the serialization of data into various formats. Threat Intelligence, Data Parsing, Open Source Computer & Information Sciences Threat Intelligence Documentation, Uses, and more
cubegui ACES Cubegui is a graphical user interface (GUI) software designed for visualizing and analyzing volumetric data in computational chemistry and materials science. Gui Software, Volumetric Data Visualization, Computational Chemistry, Materials Science Chemical Sciences, Natural Sciences Graphical User Interface (Gui) Documentation, Uses, and more
cubelib ACES cubelib is a C++ library for parallel reduction operations on multi-dimensional arrays using CUDA. Software Library, C++, Cuda, Parallel Computing, Multi-Dimensional Arrays Computer Science, Computer & Information Sciences Computational Software Documentation, Uses, and more
cubewriter ACES Cubewriter is a software tool that enables researchers to organize, write, and format scientific papers efficiently. Scientific Writing, Document Formatting, Research Collaboration, References Management Other Natural Sciences Productivity Tool Documentation, Uses, and more
cuda ACES
Anvil
Bridges-2
Delta
DeltaAI		 CUDA is a parallel computing platform and application programming interface model created by NVIDIA. It allows software developers to use a CUDA-enabled graphics processing unit for general-purpose processing. Parallel Computing, Gpu Programming, High Performance Computing, Software Development Computer & Information Sciences Compiler Documentation, Uses, and more
cuda-compat Delta
DeltaAI		 Documentation, Uses, and more
cuda-python ACES Documentation, Uses, and more
cuda-quantum Anvil cuda-quantum is a CUDA-accelerated quantum computing simulator designed to efficiently simulate quantum circuits on NVIDIA GPUs. It provides a high-performance platform for simulating large-scale quantum computations with a focus on speed and scalability. Quantum Computing, Cuda-Accelerated, Quantum Simulator, Nvidia Gpu, High-Performance Computing Computer Science, Computer & Information Sciences Quantum Computing Simulator Documentation, Uses, and more
cuda-samples ACES cuda-samples is a collection of CUDA code samples and examples provided by NVIDIA. These samples cover a wide range of CUDA programming concepts and techniques, serving as useful resources for developers to learn and practice GPU programming using CUDA. Cuda, Gpu Programming, Code Samples, Nvidia Computer & Information Sciences Code Sample Repository Documentation, Uses, and more
cuda10.2/profiler Expanse Documentation, Uses, and more
cuda10.2/toolkit Expanse Documentation, Uses, and more
cuda11.7/profiler Expanse Documentation, Uses, and more
cuda11.7/toolkit Expanse Documentation, Uses, and more
cuda12.2/profiler Expanse Documentation, Uses, and more
cuda12.2/toolkit Expanse Documentation, Uses, and more
cuda_python ACES Documentation, Uses, and more
cudacore ACES cudacore is a high-performance computational software that leverages GPU (Graphics Processing Unit) computing through CUDA (Compute Unified Device Architecture) for accelerated processing of scientific and engineering applications. Computational Software, Cuda, Gpu Computing, Scientific Computing, Engineering Applications Other Engineering & Technologies, Engineering & Technology High-Performance Computing Tool Documentation, Uses, and more
cudatoolkit DeltaAI Documentation, Uses, and more
cudf ACES CUDF is part of the RAPIDS suite of open-source software libraries and APIs built on CUDA. It provides a DataFrame manipulation library leveraging GPU acceleration for loading, joining, aggregating, filtering, and otherwise manipulating tabular data. Dataframe, Gpu Acceleration, Data Manipulation Computer & Information Sciences, Artificial Intelligence & Intelligent Systems Library Documentation, Uses, and more
cudnn ACES
Anvil
Bridges-2
Delta
DeltaAI		 The NVIDIA CUDA Deep Neural Network library (cuDNN) is a GPU-accelerated library for deep neural networks. It provides highly optimized implementations of common deep learning operations. Deep Learning, Artificial Intelligence, Machine Learning, Gpu Acceleration, Neural Networks Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Deep Learning Accelerator Documentation, Uses, and more
cue-login-env Anvil
Delta
Expanse		 Cue-login-env is a Python library that provides an easy way to configure user-specific environments within shared servers or computing clusters. It helps users manage their environment variables, aliases, and paths without interfering with the system-wide configurations. Python Library, User-Specific Environment, Shared Servers, Computing Clusters Computer & Information Sciences Python Library Documentation, Uses, and more
cufflinks Anvil Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples. RNA-Seq, Transcriptomics, Bioinformatics Biology, Biological Sciences Tool Documentation, Uses, and more
cunit ACES CUnit is a lightweight C unit testing framework for automated testing of C code. It provides an easy-to-use framework for writing test cases and test suites to verify the correct functioning of C programs. Unit Testing, C Programming, Development Tools Computer & Information Sciences Testing Framework Documentation, Uses, and more
cupy ACES CuPy is an open-source library that provides GPU-accelerated computing with Python. It is built as a drop-in replacement for NumPy and works seamlessly with other libraries in the Python ecosystem. Python Library, Gpu Computing, Numpy Replacement Computer & Information Sciences Gpu Computing Documentation, Uses, and more
cuquantum-appliance Anvil Documentation, Uses, and more
curl ACES
Anvil
DeltaAI
Expanse
KyRIC
Ookami		 curl is a command-line tool and library for transferring data with URLs. It supports various protocols including HTTP, HTTPS, FTP, FTPS, SCP, SFTP, and more. It is widely used in scripting and automation tasks, as well as for debugging network issues. Networking, Data Transfer, Command-Line, Scripting Computer & Information Sciences, Other Computer & Information Sciences Networking Tool Documentation, Uses, and more
cusparselt ACES CusparseLT library is a lightweight version of NVIDIA's cuSPARSE library designed for sparse matrix operations on NVIDIA GPUs. It offers high-performance accelerated computation for sparse matrix manipulation in GPU-accelerated applications. Sparse Matrix Operations, Gpu Acceleration, Linear Algebra, Cuda Programming Computer Science, Computer & Information Sciences Computational Software Documentation, Uses, and more
cutadapt ACES
Bridges-2		 cutadapt removes adapter sequences from high-throughput sequencing reads. It finds and removes adapter sequences, primers, poly-A tails and other types of unwanted sequence from your high-throughput sequencing reads. Bioinformatics, Ngs, Sequence Analysis, Genomics Biological Sciences Sequence Analysis Tool Documentation, Uses, and more
cutensor ACES
Delta		 cuTensor is a CUDA-accelerated library for tensor operations in NVIDIA GPUs. It provides optimized implementations for tensor contractions and element-wise operations, allowing for efficient computation of large-scale tensor operations in parallel. Cuda, Gpu Acceleration, Tensor Operations, Parallel Computing Applied Computer Science, Computer & Information Sciences Computational Software Documentation, Uses, and more
cutlass ACES Documentation, Uses, and more
cxxopts Stampede3 A lightweight C++ library for parsing command line arguments, inspired by Python's argparse library. C++, Command Line Arguments, Parsing, Library Computer & Information Sciences Documentation, Uses, and more
cython ACES Cython is a programming language that makes it easy to write C extensions for Python. It provides a superset of the Python language that allows for calling C functions and declaring C types on variables and class attributes. Programming Language, C Extensions, Python, Cython Computer & Information Sciences Language Compiler Documentation, Uses, and more
cython-blis ACES Cython wrapper around BLIS linear algebra library for Python. Cython, Blis, Linear Algebra, Python Computer & Information Sciences Library Documentation, Uses, and more
dace ACES dace (Data Assimilation for Categorical and High-Dimensional Data) is a Python toolkit for data assimilation, specifically designed for high-dimensional and categorical data. It provides a range of data assimilation algorithms and tools to effectively integrate observational data and models to improve predictions and understanding of complex systems. Data Assimilation, Python Toolkit, Observational Data Integration Computer & Information Sciences Documentation, Uses, and more
dal KyRIC DAL is a library for collision avoidance in robotics applications. Robotics, Collision Avoidance Engineering & Technology Collision Avoidance Software Documentation, Uses, and more
dask ACES Dask is a flexible parallel computing library for analytic computing, designed to scale from single machines to large clusters. It provides advanced parallelism for analytics, enabling performance at scale for the tools you love. Parallel Computing, Scalable Computing, Analytics, Data Science Computer & Information Sciences Library Documentation, Uses, and more
dask-labextension ACES Documentation, Uses, and more
dataspaces ACES Documentation, Uses, and more
dataversioncontrol/dvc ACES Documentation, Uses, and more
db ACES db is a simple and minimalistic database library for Python, designed to provide a lightweight interface for basic database operations. Database, Python Library Computer & Information Sciences, Computer Science Library Documentation, Uses, and more
db_file ACES db_file is a software tool designed for managing and manipulating database files. It provides functionalities for creating, modifying, querying, and extracting data from database files. Database Management, Data Manipulation, Querying, Data Extraction Computer & Information Sciences Tool Documentation, Uses, and more
dbcsr ACES dbcsr (distributed block compressed sparse row) is a library for creating distributed block-sparse matrix data structures and performing operations on them efficiently. It is designed for high-performance computing (HPC) applications that involve large, sparse matrices. Hpc, Sparse Matrices, Parallel Computing Other Natural Sciences Library Documentation, Uses, and more
dbus ACES D-Bus is a message bus system, a simple way for applications to talk to one another. In addition to interprocess communication, D-Bus helps coordinate process lifecycle management. Message Bus System, Interprocess Communication, Process Lifecycle Management Computer & Information Sciences Middleware Documentation, Uses, and more
dbus-glib ACES D-Bus is a message bus system for inter-application communication and coordination. dbus-glib is a library for GLib based applications to communicate with D-Bus. D-Bus, Inter-Process Communication, Glib Computer & Information Sciences Api Documentation, Uses, and more
dcmtk ACES DCMTK is a collection of libraries and applications implementing large parts the DICOM standard. It includes software for examining, constructing and converting DICOM image files, handling offline media, sending and receiving images over a network connection, as well as demonstrative image processing, and pattern recognition techniques. Dicom, Medical Imaging, Healthcare, Image Processing Medical & Health Sciences Data Processing & Analysis Documentation, Uses, and more
ddt Bridges-2
Stampede3		 DDT is a powerful, flexible, scalable, and easy-to-use debugging and performance analysis tool for parallel and serial codes. Debugging Tool, Performance Analysis, Parallel Computing, Serial Computing Computer & Information Sciences Debugger Documentation, Uses, and more
dealii Bridges-2 deal.II — a name that originally meant to indicate that it is the successor to the Differential Equations Analysis Library — is a C++ program library targeted at the computational solution of partial differential equations using adaptive finite elements. It uses state-of-the-art programming techniques to offer you a modern interface to the complex data structures and algorithms required.
Description Source: https://www.dealii.org/about.html		 Library Documentation, Uses, and more
debugger KyRIC A debugger is a software tool that allows programmers to track down and fix bugs (errors) in their programs. It enables users to step through code, inspect variables, set breakpoints, and analyze the program's execution flow. Debugging, Software Development Engineering & Technology Debugger Documentation, Uses, and more
deepdiff ACES DeepDiff is a Python library for deep (nested) comparisons of objects. Python Library, Data Comparison, Object Comparison Computer & Information Sciences Python Library Documentation, Uses, and more
default-rh9 Delta Documentation, Uses, and more
default-rh9test Delta Documentation, Uses, and more
default-s11 Delta Default-S11 is a high-performance computational software designed for bioinformatics analysis and molecular dynamics simulations. Computational Software, Bioinformatics, Molecular Dynamics, Sequence Analysis, Protein Structure Prediction Biological Sciences Bioinformatics Tool Documentation, Uses, and more
default_svc DeltaAI Documentation, Uses, and more
defaultmodules Expanse Documentation, Uses, and more
deltalake ACES Documentation, Uses, and more
dendropy ACES DendroPy is a flexible and modular phylogenetic computing library in Python, offering reading, writing, simulation, and manipulation of phylogenetic trees and associated data. Phylogenetics, Computational Biology, Python Library, Bioinformatics, Phylogenetic Trees Biological Sciences Computational Documentation, Uses, and more
desmond ACES
Bridges-2		 Desmond is a molecular dynamics simulation software designed for studying biological systems at the atomic level. It is widely used for drug discovery, protein folding, and molecular interactions. Molecular Dynamics, Biological Systems, Drug Discovery, Protein Folding Biochemistry & Molecular Biology, Biological Sciences Molecular Dynamics Software Documentation, Uses, and more
dev-utilities KyRIC Dev-utilities is a collection of various development utilities that assist software developers in various aspects of the development process. These utilities can range from code editors and version control systems to build automation tools and testing frameworks. Development, Utilities Computer & Information Sciences, Other Computer & Information Sciences Tools Documentation, Uses, and more
diamond ACES Diamond is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of protein sequence data utilizing the Diamond heuristic aligner. It is particularly optimized for aligning sequencing reads produced by next-generation sequencing (NGS) machines. Sequence Alignment, Ngs Analysis, Bioinformatics Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
diffutils KyRIC Diffutils is a collection of utilities for comparing and finding differences between text files. It includes programs like `diff` for showing the differences between two files, `cmp` for comparing two files byte by byte, and `diff3` for comparing three files. Text Comparison, File Difference, Text Analysis, Version Control Engineering & Technology Text Processing Documentation, Uses, and more
dill ACES Dill is a serialization library for Python datastructures. It provides the ability to serialize all standard Python data types without needing to be pre-informed about their existence, offering extended functionality beyond what is available in the standard `pickle` library. Serialization, Python, Datastructures, Library Computer & Information Sciences Library Documentation, Uses, and more
dimemas KyRIC DIMemas is a software tool for the automatic performance prediction of parallel applications. It utilizes simulation techniques to estimate the performance of parallel applications on large-scale systems. Performance Prediction, Parallel Applications, Simulation, Large-Scale Systems Engineering & Technology Performance Prediction Tool Documentation, Uses, and more
dlib Delta dlib is a modern C++ toolkit containing machine learning algorithms and tools for creating complex software in C++ to solve real world problems. It is used in a wide range of applications including computer vision, face detection, object detection, facial landmarks, pose estimation, and more. Machine Learning, Computer Vision, Object Detection, Facial Recognition, Pose Estimation Computer & Information Sciences Library Documentation, Uses, and more
dm-haiku ACES Documentation, Uses, and more
dm-tree ACES dm-tree is a Python library for manipulating nested tree-like data structures with ease and efficiency. It provides a comprehensive set of tools for working with hierarchical data in a user-friendly manner. Python Library, Hierarchical Data, Tree Structures, Data Manipulation Computer & Information Sciences Library Documentation, Uses, and more
dnnl KyRIC Deep Neural Network Library (DNNL) is an open-source, performance-oriented library for deep learning applications. Formerly known as Intel Math Kernel Library for Deep Neural Networks (MKL-DNN), it provides optimized building blocks for implementation of deep learning neural network layers on various hardware platforms. Deep Learning, Neural Networks, Machine Learning, Performance Optimization Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Deep Learning Library Documentation, Uses, and more
dnnl-cpu-gomp KyRIC The dnnl-cpu-gomp is an open-source deep neural network library developed for CPU-based computations employing OpenMP (Open Multi-Processing) as a thread-processing technology. Deep Learning, Neural Networks, Openmp, Cpu Computing Computer & Information Sciences Computational Software Documentation, Uses, and more
dnnl-cpu-iomp KyRIC dnnl-cpu-iomp is an optimization library for deep neural network computations on CPU using Intel OpenMP (iomp) for improved performance. Deep Learning, Optimization, Cpu Acceleration Computer & Information Sciences Documentation, Uses, and more
dnnl-cpu-tbb KyRIC Documentation, Uses, and more
docker Expanse Docker is a platform that enables users to develop, ship, and run applications within containers. Containers allow developers to package up an application with all parts it needs, such as libraries and other dependencies, and ship it all out as one package. Containerization, Deployment, Scalability, Isolation Computer & Information Sciences Virtualization Documentation, Uses, and more
dorado ACES
Bridges-2		 Dorado is a software tool used for performance evaluation and benchmarking in HPC (High-Performance Computing) environments. It allows users to assess the performance of parallel applications and optimize their running times on supercomputers and clusters. Performance Evaluation, Benchmarking, Hpc, Supercomputing Biology, Engineering & Technology Tool Documentation, Uses, and more
dos2unix Delta dos2unix is a command-line utility that converts text files with DOS or Windows line endings (CRLF) to Unix line endings (LF) format. Text Conversion, Line Endings, Command-Line Utility Computer & Information Sciences Utility Documentation, Uses, and more
dot Expanse
Ookami		 Graphviz is open source graph visualization software. It has several main graph layout programs. It also has web and interactive graphical interfaces, and auxiliary tools, libraries, and language bindings. Graph Visualization, Open Source, Graph Layout Computer & Information Sciences Graph Visualization Software Documentation, Uses, and more
double-conversion ACES double-conversion is a performant library for converting double-precision floating-point values to and from decimal strings, designed for high-performance and precision in conversions. Conversion, Performance, Precision Computer & Information Sciences Library Documentation, Uses, and more
doxygen ACES
Expanse
Ookami		 Doxygen is a documentation generator tool that is used to generate software reference documentation from annotated source code. It supports multiple programming languages and produces output in various formats, including HTML, LaTeX, RTF, and more. Documentation Generator, Software Development, Programming Software Engineering, Systems & Development Tool Documentation, Uses, and more
dpct KyRIC Data Parallel C++ for CUDA is a C++ programming model for accelerators based on the NVIDIA CUDA architecture. It allows users to write C++ code that can be compiled to target NVIDIA GPUs using CUDA for parallel execution. Cuda Programming, Gpu Computing, Parallel Programming Computer & Information Sciences Development Compiler Documentation, Uses, and more
dpl KyRIC dpl is a software for performing direct programming language analysis. Programming Language Analysis, Syntax Analysis, Language Structure Analysis Documentation, Uses, and more
draco ACES Draco is a software library for compressing and decompressing 3D geometric meshes and point clouds. It is designed to improve the storage and transmission of 3D graphics data by offering high compression ratios while maintaining the geometric integrity of the data. Compression, 3D Graphics, Geometric Data, Mesh, Point Cloud Computer & Information Sciences Library Documentation, Uses, and more
drep ACES drep (Dereplicator) is a tool for fast and accurate dereplication of genomes in microbial datasets. It helps to identify and remove duplicate sequences to ensure that downstream analyses are not biased by redundant data. Microbiome, Genome Analysis, Bioinformatics Biological Sciences Bioinformatics Documentation, Uses, and more
dsmml Delta
DeltaAI		 dsmml is a deep learning library specifically designed for molecular machine learning applications. It offers a range of tools and techniques tailored for computational chemistry and drug discovery tasks. Deep Learning, Molecular Machine Learning, Computational Chemistry, Drug Discovery Chemical Sciences, Other Chemical Sciences Deep Learning Library Documentation, Uses, and more
duckdb Anvil Documentation, Uses, and more
dyninst Delta
DeltaAI		 Dyninst is a versatile and powerful binary instrumentation and analysis tool that provides capabilities for runtime code analysis, modification, and monitoring in C, C++, and Fortran applications. Binary Instrumentation, Code Analysis, Runtime Monitoring Computer & Information Sciences Tool Documentation, Uses, and more
easybuild ACES
KyRIC		 EasyBuild is an open-source framework for building and installing software packages on High-Performance Computing (HPC) systems. It aims to make building software easier for system administrators and users on HPC systems by automating the build process. Software Building, High-Performance Computing, Automation Engineering & Technology Build Automation Documentation, Uses, and more
easybuild-aces ACES EasyBuild-ACES is a collection of EasyBuild framework recipes for building commonly used software packages within the Army Combat Capabilities Development Command Army Research Laboratory (CCDC-ARL) Computational and Information Sciences Directorate (CISD) Advanced Computing, Engineering and Software (ACES) research group. Software Development, Tools, Packages Computer & Information Sciences Tools Documentation, Uses, and more
easybuild-aces-myeb ACES User EasyBuild environment for aces.hprc.tamu.edu in $SCRATCH/eb.
Description Source: https://hprc.tamu.edu/software/aces/#		 Documentation, Uses, and more
easybuild-aces-scratch ACES User EasyBuild environment for aces.hprc.tamu.edu in $SCRATCH/eb.
Description Source: https://hprc.tamu.edu/software/aces/#		 Documentation, Uses, and more
easybuild-aces-tmp ACES EasyBuild is a software build and installation framework for high-performance computing (HPC) systems. The aces-tmp tool is a temporary directory management tool that is part of the EasyBuild framework. Software Build, Installation Framework, Hpc Systems, Temporary Directory Management Infrastructure & Instrumentation, Engineering & Technology Tool Documentation, Uses, and more
ecbuild ACES ecBuild is a CMake-based build system generator for Earth system model (ESM) projects. It focuses on enabling easy configuration and management of complex ESM projects by automating the generation of build systems. Build System Generator, Earth System Model, Cmake-Based, Esm Project, Model Coupling, Parallel Execution Earth & Environmental Sciences Build System Generator Documentation, Uses, and more
eccodes ACES eccodes is a software package for encoding/decoding and manipualting meteorological data in GRIB format. It provides a large number of functionalities to work with data in meteorology, oceanography, and climatology. Grib Data, Meteorology, Oceanography, Climatology Atmospheric Sciences, Earth & Environmental Sciences Data Encoding/Decoding Documentation, Uses, and more
eggnog-mapper ACES EggNOG-mapper is a tool that allows functional annotation of non-model species using orthology-based methods. It leverages precomputed clusters of orthologous genes from multiple species to predict gene function through orthology transfer. Functional Annotation, Orthology, Gene Function Prediction Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
eigen ACES
Anvil
Delta
Stampede3		 Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms. Linear Algebra, Numerical Computation, C++ Library Computer & Information Sciences Linear Algebra Library Documentation, Uses, and more
einops ACES einops is a Python library for tensor operations and reshaping with a focus on readability and flexibility. It provides a more intuitive and concise way of manipulating tensor dimensions in deep learning frameworks. Python Library, Tensor Manipulation, Deep Learning Frameworks Computer Science, Computer & Information Sciences Python Library Documentation, Uses, and more
elfutils ACES
DeltaAI		 elfutils is a collection of various binary tools for working with ELF files. It includes utilities for analyzing, manipulating, and creating programs and object files in the Executable and Linkable Format (ELF). These tools are commonly used by programmers, debuggers, and system administrators to inspect and modify ELF binaries. Binary Tool, Elf Files, Debugging, Programming Documentation, Uses, and more
elpa ACES
Ookami		 ELPA (Eigenvalue SoLvers for Petaflop Applications) is a library for solving the standard and generalized eigenvalue problems for dense Hermitian matrices. It is designed for high-performance computing systems and utilizes highly scalable algorithms to achieve high efficiency. Linear Algebra, Eigenvalue Problems, High-Performance Computing, Scalable Algorithms Computer & Information Sciences Library Documentation, Uses, and more
elsi ACES Documentation, Uses, and more
emacs ACES
Anvil
Delta
DeltaAI		 Emacs is a highly customizable, extensible, and self-documenting text editor. It is known for its powerful editing capabilities, which include content-aware editing, syntax highlighting, and a wide range of plugins and extensions. Text Editor, Customizable, Extensible, Self-Documenting Computer & Information Sciences Text Editor Documentation, Uses, and more
emboss Expanse EMBOSS is a comprehensive software analysis package for biological sequence data. It provides over 200 tools for sequence alignment, database searching, pattern matching, motif identification, and more. EMBOSS is widely used in bioinformatics and computational biology research. Bioinformatics, Computational Biology, Sequence Analysis, Biological Data Bioinformatics, Biological Sciences Analysis Tool Documentation, Uses, and more
enchant-2 ACES Enchant is a spellchecking library that provides a consistent API for invoking spellchecking routines across different platforms. Enchant-2 is the newer version of the Enchant spellchecking framework. Spellchecking, Library, Cross-Platform, Spellchecking Routines Computer & Information Sciences Spellchecking Documentation, Uses, and more
entrezdirect Expanse Entrez Direct (EDirect) provides access to the NCBI's suite of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window. Documentation, Uses, and more
esmf ACES The Earth System Modeling Framework (ESMF) is a software infrastructure for building and coupling weather, climate, and related Earth science models. It provides a flexible and reusable software architecture that facilitates the use, development, and coupling of Earth science models. Earth System Modeling, Climate Modeling, Weather Modeling, Model Coupling, Earth Science Earth & Environmental Sciences, Physical Sciences Computational Software Documentation, Uses, and more
exiv2 ACES Exiv2 is a C++ library and a command-line utility to manage image metadata. It provides fast and easy read and write access to the Exif, IPTC, and XMP metadata of images in various formats. Metadata Management, Image Processing, Command-Line Utility Computer & Information Sciences Metadata Management Documentation, Uses, and more
expat ACES
Anvil
Delta
DeltaAI
KyRIC		 Expat is an XML parser library written in C. It is a fast and lightweight library that is designed for high-performance applications. Xml Parser, Library Computer & Information Sciences Xml Parser Documentation, Uses, and more
expect ACES Documentation, Uses, and more
expecttest ACES expecttest is a versatile testing tool for software developers that allows for the automation of interactive applications, system administration tasks, and more. It provides a simple scripting language for driving applications and processes under test, making it easy to automate testing workflows. Testing Tool, Automation, Scripting, Software Development Automation Tool Documentation, Uses, and more
extrae KyRIC Extrae is a performance analysis tool designed to capture and analyze trace data from parallel and distributed applications. It allows users to monitor and examine the behavior of their applications in terms of performance, identifying potential bottlenecks and areas for optimization. Performance Analysis, Trace Data, Parallel Applications, Distributed Applications Computer & Information Sciences, Software Engineering, Systems & Development, Engineering & Technology, Training, Infrastructure & Instrumentation Tool Documentation, Uses, and more
eztrace ACES eztrace is a tool that provides a set of library calls that can be used to trace the evolution of applications during their execution. It helps in performance analysis by collecting information about function calls, communication patterns, and execution characteristics. Performance Analysis, Function Call Tracing, Profiling, Monitoring Computer & Information Sciences Library Tool Documentation, Uses, and more
fasta ACES Documentation, Uses, and more
fastahack ACES Documentation, Uses, and more
fastai ACES The fastai library simplifies training fast and accurate neural networks using modern best practices. It is built on top of PyTorch and provides many high-level abstractions to make it easy to train state-of-the-art models with little code. Deep Learning, Neural Networks, Machine Learning, Pytorch Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Machine Learning Framework Documentation, Uses, and more
fastani ACES
Bridges-2		 fastANI is a tool for computing average nucleotide identity (ANI) and relatedness between bacterial and archaeal genomes at high speed. It uses MinHash to estimate ANI values in a fraction of the time compared to traditional methods. Bioinformatics, Genome Comparison, Bacterial Genomes Biology, Biological Sciences Genome Analysis Tool Documentation, Uses, and more
fastp Delta fastp is a tool designed for pre-processing high throughput sequencing data faster and more efficiently. Bioinformatics, Sequencing, Data Processing Bioinformatics, Biological Sciences Tool Documentation, Uses, and more
fastq-tools Bridges-2 fastq-tools is a collection of simple and efficient command-line tools for processing FASTQ files commonly used in bioinformatics. It provides various utilities for quality control, filtering, and manipulation of raw sequencing data in FASTQ format. Bioinformatics, Ngs, Genome Sequencing, Sequence Analysis Bioinformatics, Biological Sciences Data Processing Tool Documentation, Uses, and more
fastqc ACES
Anvil
Bridges-2
Delta		 FastQC is a quality control tool for high throughput sequence data. It provides a detailed overview of the quality and potential issues in sequencing data generated by high throughput sequencing pipelines. Quality Control, High Throughput Sequencing, Sequence Analysis, Bioinformatics Biology, Biological Sciences Analysis Tool Documentation, Uses, and more
fasttree ACES
Anvil		 FastTree is a tool for inferring approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences. FastTree can handle alignments with up to a few thousand sequences and has been designed to make trees with the minimum scale up to 100,000 sequences faster by approximating maximum-likelihood with heuristics. Phylogenetics, Bioinformatics, Computational Biology, Sequence Analysis Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
fastx-toolkit Anvil
Bridges-2		 The fastx-toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing. The tools simplify and streamline various tasks related to quality control, adapter trimming, and format conversion of next-generation sequencing data. Bioinformatics, Ngs Data Processing, Sequence Analysis, Fastq Manipulation Biology, Biological Sciences Tool Documentation, Uses, and more
febio ACES Documentation, Uses, and more
fermi-lite ACES Documentation, Uses, and more
fetk ACES Documentation, Uses, and more
ffmpeg ACES
Anvil
Bridges-2
Delta
Ookami
Stampede3		 FFmpeg is a free and open-source software project consisting of a large suite of libraries and programs for handling video, audio, and other multimedia files and streams. Media Processing, Multimedia, Video, Audio Engineering & Technology Tool Documentation, Uses, and more
ffnvcodec ACES ffnvcodec is a codec library provided by NVIDIA for efficient video encoding and decoding using the NVIDIA GPU hardware acceleration. Codec, Video Processing, Gpu Acceleration Computer & Information Sciences Library Documentation, Uses, and more
fft Expanse Documentation, Uses, and more
fftw ACES
Anvil
Bridges-2
Delta
DeltaAI
KyRIC		 FFTW is a fast C library for computing the discrete Fourier transform (DFT) in one or more dimensions, of arbitrary input size, and of both real and complex data. It is widely used in areas such as signal processing, data compression, and solving partial differential equations. Signal Processing, Data Compression, Partial Differential Equations Applied Mathematics, Mathematics Computational Software Documentation, Uses, and more
fftw.mpi ACES FFTW is a comprehensive collection of fast C routines for computing the Discrete Fourier Transform (DFT) and various generalizations, used in a wide range of applications in computational mathematics, physics, and engineering. Computational Software, Hpc Tools Mathematics Tool Documentation, Uses, and more
fftw2 Stampede3 Documentation, Uses, and more
fftw3 Ookami
Stampede3		 The Fastest Fourier Transform in the West (FFTW) is an open-source software library for calculating discrete Fourier transforms (DFTs) efficiently. It provides a wide range of algorithms for executing Fourier transforms of various sizes, both real and complex data. Fft, Fourier Transform, Open-Source, Computational Physics Condensed Matter Physics, Physical Sciences Numerical Library Documentation, Uses, and more
fiji ACES Fiji is an image processing package, a distribution of ImageJ, bundling a lot of plugins which facilitate scientific image analysis. It is open-source software extensively used in scientific research for image visualization and processing. Image Processing, Scientific Research, Image Analysis Other Natural Sciences Analysis Tool Documentation, Uses, and more
file ACES File is a command-line utility that performs file type identification. It is commonly used to determine the file type and content of a given file or set of files. File Management, Command-Line Utility Command Line Tool Documentation, Uses, and more
filevercmp ACES Documentation, Uses, and more
filtlong Bridges-2 filtlong is a tool for filtering long reads generated by third-generation sequencing technologies such as PacBio or Oxford Nanopore. It allows for the removal of reads based on user-defined length or quality thresholds. Bioinformatics, Long Read Sequencing, Sequence Data Processing Biological Sciences Data Filtering Tool Documentation, Uses, and more
findutils DeltaAI Documentation, Uses, and more
fiona ACES Fiona is a Python library for reading and writing geospatial vector data formats. Python Library, Geospatial Data, Gis, Vector Data Earth & Environmental Sciences Library Documentation, Uses, and more
firefox ACES Mozilla Firefox, commonly known as Firefox, is a free and open-source web browser developed by the Mozilla Foundation and its subsidiary, Mozilla Corporation. It is available for Windows, macOS, Linux, and mobile devices. Firefox focuses on privacy, speed, and customization. Web Browser, Internet, Privacy, Open-Source, Cross-Platform Computer & Information Sciences Web Browser Documentation, Uses, and more
flac ACES Free Lossless Audio Codec (FLAC) is an open-source audio coding format for lossless compression of digital audio. It offers high audio quality and smaller file sizes without losing any information during compression and decompression. Audio Codec, Open-Source, Lossless Compression Other Computer & Information Sciences Compression Tool Documentation, Uses, and more
flash ACES
Bridges-2		 Flash is a multi-purpose computational software that specializes in numerical simulations for fluid dynamics, electromagnetics, structural analysis, and other physics-based applications. It is developed and maintained by the Center for Computational Sciences and Engineering at Lawrence Berkeley National Laboratory. Computational Software, Numerical Simulation, Fluid Dynamics, Electromagnetics, Structural Analysis Physical Sciences Computational Physics Documentation, Uses, and more
flash-attention ACES Documentation, Uses, and more
flask ACES Flask is a lightweight and versatile Python web application framework that provides the essentials for building web applications. It is known for its simplicity, flexibility, and ease of use, making it a popular choice for developers. Web Development, Python, Framework, Web Applications Computer & Information Sciences Open Source Documentation, Uses, and more
flatbuffers ACES FlatBuffers is an open-source, cross-platform serialization library for efficient data storage and communication. It allows for storing and accessing serialized data without parsing and generating overhead, making it faster and more memory-efficient than traditional serialization methods. Serialization, Data Storage, Communication, Efficiency, Cross-Platform Computer & Information Sciences Library Documentation, Uses, and more
flatbuffers-python ACES FlatBuffers is a cross platform serialization library architected for maximum memory efficiency. It allows you to directly access serialized data without parsing/unpacking it first, while still having great forwards/backwards compatibility.
Description Source: https://github.com/google/flatbuffers/		 Library Documentation, Uses, and more
flex ACES
DeltaAI
Ookami		 Flex is a fast lexical analyzer generator. It is a tool for creating programs that perform pattern-matching on text. It reads the given input files for a description of a scanner to generate and produces a C source file for the scanner. The output file, lex.yy.c, can then be compiled and linked with the flex runtime library to produce an executable. The resulting executable will scan input files for occurrences of the regular expressions in the scanner description, and perform actions specified in the description. Lexical Analyzer, Text Processing, Pattern Matching, Scanner Generator Documentation, Uses, and more
flexiblas ACES
Delta		 FlexiBLAS is a lightweight BLAS (Basic Linear Algebra Subprograms) library that aims to provide efficient and flexible implementations of BLAS routines for various hardware platforms. It is designed to optimize performance on CPUs, GPUs, and other accelerators, making it suitable for a wide range of scientific computing applications. Blas Library, Scientific Computing, Linear Algebra Other Mathematics Library Documentation, Uses, and more
flit ACES Flit is a simple tool for building and distributing Python packages. Python Packaging, Package Management Computer & Information Sciences Building & Distribution Tool Documentation, Uses, and more
fltk ACES FLTK (Fast, Light Toolkit) is a cross-platform C++ GUI toolkit for developing graphical user interfaces. It provides various widgets and tools for creating interactive and responsive graphical applications. Gui Toolkit, Cross-Platform Development, C++ Library Engineering & Technology Development Tool Documentation, Uses, and more
fms2 Ookami fms2 is an efficient and flexible Fortran to C++ source-to-source compiler that aids in translating Fortran 77/90/95 code to modern C++ code, enabling improved performance and compatibility. Compiler, Software, Translation Other Computer & Information Sciences Source-To-Source Compiler Documentation, Uses, and more
fmt ACES Documentation, Uses, and more
fmtlib Stampede3 Documentation, Uses, and more
font-util Anvil
DeltaAI		 Documentation, Uses, and more
fontconfig ACES
Anvil
DeltaAI		 Fontconfig is a library designed to provide system-wide font configuration, customization, and management for user interfaces and text display on Linux and other Unix-like operating systems. It allows applications to discover and access fonts, and provides settings for font selection, aliasing, subsetting, and caching. Fontconfig, Font Management, Font Configuration, Linux, Unix-Like Systems Engineering & Technology System Tool Documentation, Uses, and more
fontsproto DeltaAI Documentation, Uses, and more
foss ACES FOSS (Free and Open Source Software) refers to software that is both free to use and distribute, as well as with access to the source code for modification or enhancement by users. Free Software, Open Source Software, Software Development Other Computer & Information Sciences Software Library Documentation, Uses, and more
fosscuda ACES FOSSCUDA stands for Free and Open-Source Software for CUDA (Compute Unified Device Architecture) and is a collection of tools and libraries that enable developers to leverage the power of NVIDIA GPUs for parallel computing tasks. Cuda, Gpu Computing, Parallel Programming, Open-Source Computer Science, Computer & Information Sciences Compiler/Library Documentation, Uses, and more
freebayes ACES FreeBayes is a Bayesian genetic variant detector designed to find small polymorphisms, specifically SNPs (single-nucleotide polymorphisms), indels (insertions and deletions), and complex events (composite insertion and substitution events) smaller than the length of a short-read sequencing alignment. Genetic Variant Detector, Snp Detection, Indel Detection, Bayesian Algorithm Bioinformatics, Biological Sciences Tool Documentation, Uses, and more
freeglut ACES FreeGLUT is a free-software/open-source alternative to the OpenGL Utility Toolkit (GLUT) library. It provides a simple, platform-independent API for creating windows, sub-windows, and menus, as well as handling input from keyboard, mouse, and joystick devices. FreeGLUT aims to be as close to the original GLUT functionality as possible while also improving and extending it. Graphics Programming, Opengl, Cross-Platform Development, Free Software Computer & Information Sciences Graphics Library Documentation, Uses, and more
freeipmi Expanse
Ookami		 FreeIPMI is an open-source BMC (Baseboard Management Controller) software that provides a consistent and reliable interface for managing and monitoring IPMI-compliant systems. It allows administrators to remotely manage server hardware, monitor sensors, power on/off servers, and perform other BMC-related functions. Bmc, Baseboard Management Controller, Open-Source, Hardware Management, Monitoring Computer & Information Sciences Management & Monitoring Tool Documentation, Uses, and more
freesurfer Expanse FreeSurfer is a software suite used for the analysis and visualization of structural and functional neuroimaging data from MRI and CT scans. It is widely used in the field of neuroscience and neuroimaging research. Neuroimaging, Mri Analysis, Brain Segmentation, Functional Mri, Image Visualization Neuroscience, Biological Sciences Scientific Documentation, Uses, and more
freetype ACES
Anvil
DeltaAI		 FreeType is a software font engine that is designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images). It can be used in various applications that require text rendering, such as operating systems, web browsers, desktop publishing tools, and more. Font Engine, Text Rendering, Typography Computer & Information Sciences Font Engine Documentation, Uses, and more
freexl ACES FreeXL is a library to extract data from Excel (.xls) spreadsheet files. The library allows for reading Excel files without the need for Microsoft Excel to be installed. Excel, Spreadsheet, Data Extraction Computer & Information Sciences Data Extraction Documentation, Uses, and more
fribidi ACES
DeltaAI
Ookami		 GNU FriBidi is an implementation of the Unicode Bidirectional Algorithm (bidi). It also provides utility functions to help work with bidirectional text. Unicode, Bidirectional Algorithm Computer & Information Sciences Text Processing Documentation, Uses, and more
fsom ACES Documentation, Uses, and more
fujitsu Ookami Fujitsu is a multinational information technology equipment and services company headquartered in Tokyo, Japan. Fujitsu offers a wide range of products and services including servers, storage systems, software, networking equipment, and more. It Services, Information Technology, Hardware, Software Computer & Information Sciences Documentation, Uses, and more
funannotate Bridges-2 funannotate is a pipeline for genome prediction and annotation of fungi. It automates the process of predicting gene models, functional annotation, and comparative genomics analysis for fungal genomes. Genome Prediction, Genome Annotation, Fungi, Bioinformatics Biological Sciences Bioinformatics Tool Documentation, Uses, and more
g2clib ACES g2clib is a library for the manipulation of geophysical data in the GEMPAK format. It provides routines for reading, writing, and manipulating meteorological and geophysical data. Geophysics, Meteorology, Data Manipulation, Data Analysis Earth & Environmental Sciences Computational Tool Documentation, Uses, and more
g2lib ACES g2lib is a C++ library for 2D and 3D geometric computing, mainly focusing on computational geometry and computer graphics. It provides efficient and robust geometric algorithms for various tasks. Computational Geometry, Computer Graphics, Geometric Computing Computer & Information Sciences Computational Software Documentation, Uses, and more
gambit Ookami Gambit is an open-source software package for carrying out computational game theory analysis. It provides tools for the representation, numerical solution, and strategic analysis of games, including extensive support for the computation of Nash equilibria. Game Theory, Computational Analysis, Nash Equilibria Economics & Business, Social Sciences Software Package Documentation, Uses, and more
gamess Bridges-2
Stampede3		 The General Atomic and Molecular Electronic Structure System (GAMESS) is a suite of ab initio quantum chemistry programs designed for electronic structure calculations of molecules and molecular reactions. It provides a wide range of methods for both molecules and periodic solids. Quantum Chemistry, Electronic Structure Calculations, Ab Initio Calculations Physical Sciences, Chemical Sciences Quantum Chemistry Documentation, Uses, and more
gatb-core ACES Documentation, Uses, and more
gatk ACES
Anvil
Bridges-2		 The Genome Analysis Toolkit (GATK) is a widely used software package for variant discovery and genotyping analysis in high-throughput sequencing data. Developed by the Broad Institute, GATK provides a robust and comprehensive set of tools for processing raw sequencing data into accurate variant calls. Variant Calling, Genotyping, Sequencing Analysis Biology, Biological Sciences Tool Documentation, Uses, and more
gaussian Bridges-2
Stampede3		 Gaussian is a computational chemistry software suite used for electronic structure modeling. It is widely utilized in research and industry for predicting molecular properties and simulating chemical processes. Computational Chemistry, Quantum Chemistry, Molecular Modeling Chemical Sciences, Natural Sciences Simulation Software Documentation, Uses, and more
gawk KyRIC Gawk is a powerful text processing utility that allows for pattern scanning and processing. It is based on the Awk programming language and is particularly useful for manipulating text files and generating reports. Text Processing, Data Manipulation, Pattern Scanning Chemistry, Computer & Information Sciences Text Processing Tool Documentation, Uses, and more
gc ACES GC is a compiler for the Go programming language. Compiler, Go, Garbage Collection, Concurrency Computer Science, Computer & Information Sciences Programming Language Compiler Documentation, Uses, and more
gcc ACES
Anvil
Bridges-2
Delta
DeltaAI
Expanse
KyRIC
Ookami		 GNU Compiler Collection (GCC) is a free and open-source compiler system that supports various programming languages and platforms. It is widely used for compiling high-level programming languages into executable code for a variety of computer architectures. Compiler, Software Development, Programming Computer Science Development Tools Documentation, Uses, and more
gcc compilers Stampede3 Documentation, Uses, and more
gcc-native Delta
DeltaAI		 gcc-native is a compiler system produced by the GNU Project supporting various programming languages, most notably C, C++, and Fortran. It is the default compiler for many Unix-like operating systems. Compiler, Gnu, Programming Language Computer Science, Computer & Information Sciences Native Compiler Documentation, Uses, and more
gcc-native-mixed DeltaAI The gcc-native-mixed compiler is a version of the GNU Compiler Collection (GCC) that is specifically optimized for mixed-language programming, allowing developers to combine different programming languages within the same codebase. Compiler, Mixed-Language Programming, Optimization Computer Science Development Tool Documentation, Uses, and more
gcc-runtime Delta The GCC Runtime Library is a part of the GCC compiler collection that provides runtime support for programs compiled with GCC. It includes various runtime libraries and support files necessary for programs compiled with GCC to execute correctly. Compiler, Runtime, Library Software Engineering, Systems & Development, Engineering & Technology Runtime Library Documentation, Uses, and more
gcccore ACES gcccore refers to the core components of the GNU Compiler Collection (GCC), which is a collection of compilers for several programming languages. These core components provide essential functionality for compiling code and generating executable programs. Compiler, Programming, Software Development Computer & Information Sciences, Software Engineering, Systems & Development Core Component Documentation, Uses, and more
gcccuda ACES gcccuda is a wrapper around the GCC C compiler that enables CUDA programming directly in C without the need for NVCC. It allows developers to write CUDA code using familiar C syntax and compile it with the GCC compiler. Cuda Programming, C Compiler Wrapper, Parallel Computing Computer Science, Computer & Information Sciences Development Tool Documentation, Uses, and more
gcloud ACES Documentation, Uses, and more
gconf ACES GConf is a configuration database system used by GNOME desktop environment and other GNOME software applications to store settings and preferences. It provides a centralized location for storing configuration data, allowing applications to access and update settings easily. Configuration Management, Settings, Preferences, Desktop Environment Computer & Information Sciences Configuration Management System Documentation, Uses, and more
gdal ACES
Anvil
Delta
DeltaAI
Stampede3		 GDAL (Geospatial Data Abstraction Library) is a translator library for raster and vector geospatial data formats that is released under an X/MIT style Open Source license. It is a collection of geospatial data manipulation libraries that support raster and vector data formats, and includes protocols to access geospatial data sources. Geospatial Data, Raster Data, Vector Data, Data Formats, Geospatial Analysis Earth & Environmental Sciences, Engineering & Technology Library Documentation, Uses, and more
gdb ACES
Anvil
Delta
DeltaAI
Expanse
Ookami		 GDB, the GNU Project debugger, allows you to see what is going on 'inside' another program while it executes or what another program was doing at the moment it crashed. Debugger, Programming, Software Development Computer & Information Sciences Debugger Documentation, Uses, and more
gdb4hpc Delta
DeltaAI		 gdb4hpc is a plugin designed to enhance the GNU Debugger (GDB) for High Performance Computing (HPC) applications. It provides additional features to aid in debugging parallel and distributed applications typically used in HPC environments. Debugging, Hpc, Parallel Programming, Performance Analysis Computer Science, Engineering & Technology Plugin Documentation, Uses, and more
gdbm Anvil
DeltaAI
KyRIC		 GNU dbm (GDBM) is a library that provides an abstraction for a simple database manager. It allows for the creation and manipulation of key/value pairs in a persistent database, with support for fast lookup, retrieval, insertion, and deletion operations. Database Management, Key-Value Store, Persistent Storage, Api Computer & Information Sciences Library Documentation, Uses, and more
gdc-client KyRIC Documentation, Uses, and more
gdk-pixbuf ACES The GdkPixbuf library provides a way to load images into a program and manipulate those images. It is used by GTK and GNOME applications to handle images. GdkPixbuf supports loading, saving, scaling, compositing, and transforming images, allowing various graphical operations to be performed on the images. Image Processing, Graphics, Library Computer & Information Sciences Image Processing Documentation, Uses, and more
gdown ACES Documentation, Uses, and more
gdrcopy ACES
Delta		 gdrcopy is a CUDA accelerated GPU memory copy library for NVIDIA GPUs. It provides efficient memory copy operations between host and device memory with the use of asynchronous memory copies and supports different data types for optimal performance. Gpu Memory Copy, Cuda Acceleration, Asynchronous Memory Copies Computer Science, Computer & Information Sciences Memory Management Documentation, Uses, and more
geant4 ACES GEANT4 is a toolkit for the simulation of the passage of particles through matter. It is used by a large number of experiments and projects in a variety of application domains, including high energy physics, astrophysics and space science, medical physics, and radiation protection. Software, Physics, Simulation, Particle Transport Particle Physics, Physical Sciences Toolkit Documentation, Uses, and more
geant4-data ACES Datasets for Geant4. Documentation, Uses, and more
genemark-es Bridges-2 GeneMark-ES (Eukaryotic) is a eukaryotic gene prediction software that accurately predicts the location and structure of protein-coding genes in eukaryotic genomes. It is based on an unsupervised ab initio approach using hidden Markov model algorithms. Gene Prediction, Bioinformatics, Eukaryotic Genomes, Hidden Markov Model Biological Sciences Gene Prediction Software Documentation, Uses, and more
generativemodels ACES Project MONAI is a set of open-source, freely available collaborative frameworks built for accelerating research and clinical collaboration in Medical Imaging. The goal is to accelerate the pace of innovation and clinical translation by building a robust software framework that benefits nearly every level of medical imaging, deep learning research, and deployment. Documentation, Uses, and more
genomepy ACES Genomepy is a Python package for downloading reference genomes and associated annotation files from various sources. It simplifies the process of obtaining genomic data required for bioinformatics analysis. Genomics, Bioinformatics, Python, Reference Genomes, Sequence Analysis Genomics, Biological Sciences Python Library Documentation, Uses, and more
gent Bridges-2 Gent is a graph-based DNA comparison tool that enables the identification of structural variants, inversions, deletions, insertions, duplications, and translocations in the human genome. DNA Comparison, Structural Variants, Genomics Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
geocube ACES Geocube is a Python library for generating interactive 3D visualizations of geospatial data. It is designed to facilitate the creation of immersive and dynamic representations of geospatial information for research, analysis, and presentation purposes. Geospatial Data, 3D Visualization, Python Library Earth & Environmental Sciences, Physical Sciences Python Library Documentation, Uses, and more
geopandas ACES Geopandas is an open-source python library for working with geospatial data, enabling users to easily manipulate and analyze geospatial datasets. Geospatial Data, Python Library, Geospatial Analysis Earth & Environmental Sciences Data Analysis Documentation, Uses, and more
geos ACES
Anvil
DeltaAI
Ookami		 Geos is an open-source geometry engine that provides C++ software libraries and tools for processing spatial data. It is a key component of the PostGIS spatial database extender and is used in various GIS software applications. Geometry Engine, Spatial Data Processing, Gis, Open-Source Other Computer & Information Sciences, Computer & Information Sciences Geospatial Software Documentation, Uses, and more
gethost Ookami gethost is a command-line utility that retrieves the IP address and hostname of a specified domain or URL. It can be used to quickly obtain network information during troubleshooting or system administration tasks. Networking, Command-Line, System Administration Computer & Information Sciences Networking Tool Documentation, Uses, and more
gettext ACES
Anvil
Bridges-2
DeltaAI
KyRIC		 GNU gettext is a package providing a framework for internationalization and localization of software. It includes tools for extracting translatable strings from source code, for generating message catalogs (pot files), and for translating the strings into different languages. Internationalization, Localization, Software Development Computer & Information Sciences Localization Tool Documentation, Uses, and more
gfbf ACES Gfbf is a compiler for Boolean functions, implemented as an SMT/SAT translation tool. It takes a Boolean function expressed as an algebraic normal form (ANF) as input and produces output in various formats including Conjunctive Normal Form (CNF), Decision Diagrams, and Truth Tables. The tool is designed to efficiently manipulate and analyze Boolean functions for various applications in logic synthesis, verification, and optimization. Compiler, Boolean Functions, Logic Synthesis, Verification, Optimization Computer Science, Computer & Information Sciences Compilation Tool Documentation, Uses, and more
gffcompare Delta gffcompare is a tool for evaluating the accuracy of RNA-Seq transcript assemblers and for annotating genomic features. RNA-Seq, Transcript Assembly, Genome Annotation Biological Sciences Computational Tool Documentation, Uses, and more
gfms Anvil Documentation, Uses, and more
gh Delta
Expanse		 Github CLI. Description Source: https://github.com/conda-forge/gh-feedstock/blob/main/recipe/meta.yaml Documentation, Uses, and more
ghostscript ACES
Anvil		 Ghostscript is a versatile software suite for viewing, converting, and printing PostScript and PDF files. It is widely used for rasterizing files for high-quality printing and viewing on a variety of devices. Document-Processing, File-Conversion, Print-Management Computer & Information Sciences, Engineering & Technology Software Development Documentation, Uses, and more
giflib ACES Giflib is a library for reading and writing GIF images. It is a widely used library for handling Graphics Interchange Format (GIF) images in various software applications and programming languages. Library, Image Processing, Gif Images Package Documentation, Uses, and more
git ACES
Delta
KyRIC
Ookami		 Git is a distributed version control system designed to handle everything from small to very large projects with speed and efficiency. It is an open-source tool that is widely used for source code management in software development. Version Control, Software Development, Source Code Management Computer & Information Sciences, Software Engineering, Systems & Development Development Tools Documentation, Uses, and more
git-lfs ACES
Delta
DeltaAI		 Git Large File Storage (LFS) is a Git extension that reduces the impact of large files in your repository by replacing them with text pointers while storing the actual file content on a remote server. It seamlessly integrates with Git and provides efficient handling of large files, making it easier to work with version-controlled repositories containing large assets. Version Control, File Storage, Git Extension Engineering & Technology Development Tool Documentation, Uses, and more
gitpython ACES GitPython is a python library used to interact with Git repositories. It provides a high-level API that allows for interfacing with Git commands and repositories directly from Python scripts. Version Control, Source Code Management, Python Library Computer Science Development Documentation, Uses, and more
gklib ACES
Stampede3		 gklib is a C++ library for geometric kernels that provides efficient and accurate geometric algorithms for computational geometry and related fields. Geometric Kernels, Computational Geometry, Algorithms Applied Mathematics, Mathematics Computational Software Documentation, Uses, and more
gl2ps ACES GL2PS is an OpenGL to PostScript printing library that converts any OpenGL action into a vector PostScript image. It provides capabilities for saving OpenGL-generated 2D and 3D graphics as encapsulated PostScript files. GL2PS is written in C++ and can be easily integrated into existing OpenGL code. Opengl, Postscript, Printing, Graphics, Vector Graphics Library Documentation, Uses, and more
glances Ookami A cross-platform curses-based monitoring tool Description Source: https://github.com/conda-forge/glances-feedstock/blob/main/recipe/meta.yaml Documentation, Uses, and more
glew ACES The OpenGL Extension Wrangler Library (GLEW) is a cross-platform open-source C/C++ extension loading library. It assists in accessing OpenGL extensions and functions dynamically, providing a simple and lightweight solution for managing OpenGL extensions. Opengl, Extension Loader, C/C++ Library Computer Science Tool Documentation, Uses, and more
glfw ACES GLFW is an open-source, multi-platform library for creating windows with OpenGL contexts and managing input. It provides a simple API for creating and managing windows, contexts, and surfaces, receiving input events. GLFW is written in C and provides native support for Windows, macOS, and Linux, as well as experimental support for mobile platforms. Graphics, Opengl, Cross-Platform, Window Management, Input Handling Computer & Information Sciences Development Tool Documentation, Uses, and more
glib ACES
Anvil
DeltaAI		 GLib is a general-purpose utility library for the C programming language. It provides data structure handling for lists, trees, hashes, memory allocation, and other commonly needed functionality. Utility Library, C Programming, Data Structures, Memory Management, Thread Support Computer & Information Sciences Utility Documentation, Uses, and more
glib-networking ACES Glib-networking is a set of network-related GIO modules for GLib, providing high-level network access, network diagnostic utilities, and TLS support. It is part of the GNOME project and is commonly used in Linux-based systems. Glib, Network, Linux, Library Computer & Information Sciences Documentation, Uses, and more
glibc Ookami glibc, the GNU C Library, is an essential part of most systems running the Linux kernel. It provides the necessary functionality for programs written in the C programming language to interact with the operating system and hardware. C Library, Operating System, System Programming Computer & Information Sciences Library Documentation, Uses, and more
glm ACES
Delta		 glm is a Python library for Generalized Linear Models (GLM) with support for exponential family distributions. Python Library Mathematics Library Documentation, Uses, and more
globalarrays ACES
Ookami		 Global Arrays (GA) is a Partitioned Global Address Space (PGAS) programming model Documentation, Uses, and more
globus-cli ACES The globus-cli is a command-line interface tool that provides users with a way to interact with the Globus file transfer service directly from the terminal. It allows for managing transfers, accessing endpoints, and monitoring tasks efficiently through the command line interface. Command-Line Interface, File Transfer Service, Data Management, Data Transfer Other Computer & Information Sciences Command Line Tool Documentation, Uses, and more
globusconnectpersonal Ookami Documentation, Uses, and more
glpk ACES GNU Linear Programming Kit (GLPK) is an open-source software package for solving large-scale linear programming (LP), mixed integer programming (MIP), and other related problems. It is designed with an emphasis on flexibility, portability, and ease of use. Linear Programming, Optimization, Open-Source Applied Mathematics, Mathematics Mathematical Optimization Documentation, Uses, and more
gmap-gsnap ACES GMAP and GSnap are splice-aware algorithms for mapping RNA-Seq reads to a genome. GMAP is a genomic mapping and alignment program while GSnap is a sensitive and accurate gapped read mapper. Both tools are commonly used in bioinformatics for RNA-Seq analysis. RNA-Seq, Bioinformatics, Mapping, Alignment Biological Sciences Analysis Tool Documentation, Uses, and more
gmp ACES
Anvil
DeltaAI
Expanse
KyRIC
Stampede3		 The GNU Multiple Precision Arithmetic Library (GMP) is a free library for arbitrary-precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers. Computational Software, Library, Mathematics, Software Development Pure Mathematics, Mathematics Library Documentation, Uses, and more
gmpy2 ACES gmpy2 is a Python library for arbitrary-precision arithmetic within Python using the GMP and MPFR libraries. It provides efficient multiple-precision arithmetic in Python and supports both integer and floating-point arithmetic with arbitrary precision. Python Library, Arbitrary-Precision Arithmetic, Gmp Library, Mpfr Library Computer & Information Sciences Python Library Documentation, Uses, and more
gmt Anvil The Generic Mapping Tools (GMT) is an open-source collection of command-line tools for manipulating geographic and Cartesian data sets (including filtering, trend fitting, gridding, projecting, etc.) and producing PostScript illustrations ranging from simple x-y plots through contour maps to artificially illuminated surfaces and 3-D perspective views. GMT supports over 40 map projections and transformations and comes with support data such as coastlines, rivers, and political boundaries. Mapping, Geographic Data, Cartesian Data, Illustration, Postscript, Map Projections Earth & Environmental Sciences Command Line Tool Documentation, Uses, and more
gnu autotools KyRIC Documentation, Uses, and more
gnu compiler collection KyRIC Documentation, Uses, and more
gnu-parallel Ookami GNU parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. The typical input is a list of files, a list of hosts, a list of users, a list of URLs, or a list of tables. A job can also be a command that reads from a pipe. GNU parallel can then split the input and pipe it into commands in parallel.
Description Source: https://www.gnu.org/software/parallel/		 Documentation, Uses, and more
gnuconfig DeltaAI Documentation, Uses, and more
gnuplot ACES
Anvil
Delta
DeltaAI
Expanse
Ookami		 Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. It is capable of producing interactive plots and supports various output formats. Graphing, Visualization, Data Analysis Physical Sciences Plotting & Data Visualization Documentation, Uses, and more
gnutls ACES
DeltaAI		 GnuTLS is a secure communications library implementing the SSL, TLS and DTLS protocols, providing various cryptographic algorithms. Security, Encryption, Networking Computer & Information Sciences Library Documentation, Uses, and more
go ACES
Expanse
KyRIC
Ookami		 Go is expressive, concise, clean, and efficient. Its concurrency mechanisms make it easy to write programs that get the most out of multicore and networked machines, while its novel type system enables flexible and modular program construction. Go compiles quickly to machine code yet has the convenience of garbage collection and the power of run-time reflection. It's a fast, statically typed, compiled language that feels like a dynamically typed, interpreted language.
Description Source: https://go.dev/doc/		 Documentation, Uses, and more
go-bootstrap KyRIC go-bootstrap is a Go programming language template project that provides a starting point for building Go applications with a predefined project structure, configuration, and best practices. Go, Template, Project Structure, Best Practices Engineering & Technology Template Project Documentation, Uses, and more
gobject-introspection ACES
DeltaAI		 GObject Introspection is a middleware layer between C libraries (using GObject) and language bindings. The goal is to make the C libraries accessible from scripting languages and other environments without the need for manual intervention. Middleware, Language Bindings, Automation, Compatibility Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
gomkl ACES Documentation, Uses, and more
gompi ACES Gompi is a parallel computing software tool that provides a set of compilers and libraries for running MPI (Message Passing Interface) programs on HPC (High Performance Computing) clusters. It aims to enhance the performance of parallel applications by optimizing communication and coordination between nodes in distributed computing environments. Hpc, Parallel Computing, Mpi, Distributed Computing Engineering & Technology Documentation, Uses, and more
gompic ACES gompic is an open-source framework for simulating collective dynamics in soft matter systems with a focus on granular materials. It is designed to simulate the dynamics of large ensembles of particles undergoing complex interactions and can be used to study phenomena like granular flow, pattern formation, and self-organization. Simulation, Granular Materials, Collective Dynamics, Soft Matter Other Physical Sciences, Physical Sciences Research Documentation, Uses, and more
googletest ACES Google Test is a unit testing library for the C++ programming language. It is designed to be easy to write and understand tests, provides a rich set of assertions for verifying test expectations, and supports various testing styles. Unit Testing, C++ Testing, Testing Library, Software Testing Computer & Information Sciences Library Documentation, Uses, and more
gotranseq ACES Documentation, Uses, and more
gpaw ACES GPAW (Grid-based Projector-augmented wave method) is an efficient and accurate Density Functional Theory (DFT) code based on the projector-augmented wave (PAW) method. It is designed for simulating the electronic structure of atoms, molecules, and solid materials. Dft, Electronic Structure, Quantum Mechanics Condensed Matter Physics, Physical Sciences Simulation Documentation, Uses, and more
gpaw-setups ACES Documentation, Uses, and more
gperf ACES
DeltaAI
Ookami		 GNU gperf is a perfect hash function generator tool that generates perfect hash functions for sets of keys, optimized for use in constructing a minimal perfect hash table. Perfect Hash Function, Hash Table, Optimization, Gnu Computer Science, Computer & Information Sciences Compiler/Generator Documentation, Uses, and more
gperftools ACES
Ookami		 gperftools is a collection of performance analysis and profiling tools for C and C++ applications. It includes tools such as CPU and heap profilers, heap-checker, and a specialized CPU profiler for multithreaded programs. Performance Analysis, Profiling, C/C++ Engineering & Technology Tool Documentation, Uses, and more
gpflow ACES GPflow is a Gaussian process library that uses TensorFlow for its core computational backend. It is a scalable, flexible, and modular Gaussian process framework for building probabilistic models. Machine Learning, Probabilistic Programming, Gaussian Processes Computer & Information Sciences, Artificial Intelligence & Intelligent Systems Documentation, Uses, and more
gpgme ACES Documentation, Uses, and more
gpu Expanse GPU, short for Graphics Processing Unit, is a specialized electronic circuit designed to rapidly manipulate and alter memory to accelerate the creation of images in a frame buffer intended for output to a display device. In recent years, GPUs have been leveraged for general-purpose computing, allowing for massive parallel processing capabilities. Software, Computational Software, Hpc Tools, Gpu, Parallel Processing Engineering & Technology, Computer & Information Sciences Hardware Documentation, Uses, and more
gpustat ACES gpustat is a Python library that gives an easy access to the GPU-related data, such as GPU utilization, memory usage, temperature, and power. It provides a command-line interface for quickly checking the status of GPUs in a system. Gpu Monitoring, System Administration, Python Library, Command-Line Tool Computer Science, Engineering & Technology Library Documentation, Uses, and more
gpytorch ACES GPyTorch is a Gaussian process library implemented using PyTorch. It is designed for scalable and flexible Gaussian process models, with a focus on deep learning integration. Machine Learning, Gaussian Processes, Deep Learning Computer & Information Sciences Python Library Documentation, Uses, and more
grads Anvil GrADS (Grid Analysis and Display System) is an interactive desktop tool that is used for easy access, manipulation, and visualization of earth science data. It is particularly popular in meteorology and climatology for analyzing and plotting meteorological data. Data Visualization, Meteorology, Climatology, Earth Science, Data Analysis Earth & Environmental Sciences Desktop Application Documentation, Uses, and more
graphblas ACES GraphBLAS is a collection of high-performance linear algebraic operations specifically designed for sparse graphs and matrices. Graph, Linear Algebra, Sparse Matrices Computer & Information Sciences Library Documentation, Uses, and more
graphene ACES Graphene is a Python library for building GraphQL APIs fast and easily. Python Library, Graphql Computer & Information Sciences Library Documentation, Uses, and more
graphicsmagick ACES GraphicsMagick is a robust collection of tools and libraries that offers a comprehensive range of image processing capabilities. It provides a powerful utility for dynamically reading, writing, and modifying images for over 88 major formats. Image Processing, Graphics, Media Editing, Command-Line Tools Other Computer & Information Sciences Image Processing Software Documentation, Uses, and more
graphite2 ACES Graphite is a system that can be used to create 'smart fonts' capable of displaying writing systems with various complex behaviors. Graphite fonts are capable of providing contextual forms, reordering, ligatures, and other advanced typographic behavior. Font Rendering, Typography, Smart Fonts Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
graphviz ACES Graphviz is open source graph visualization software. It is used for creating structured diagrams such as flowcharts, network diagrams, and more. Graph Visualization, Diagramming, Open Source Software Computer & Information Sciences Data Visualization Documentation, Uses, and more
graphviz-python ACES graphviz-python is a Python library for creating and rendering graph visualizations using Graphviz. It provides a simple interface to create and manipulate graphs and visualize them in various formats. Graph Visualization, Python Library, Network Analysis Computer & Information Sciences Visualization Tool Documentation, Uses, and more
grass ACES Documentation, Uses, and more
great_tables ACES Documentation, Uses, and more
greenlet ACES Greenlet is a lightweight library that allows micro-threads to be utilized in a concurrent programming fashion within a single process. It provides a simple way to implement coroutines in Python. Python Library, Concurrency, Coroutines Computer & Information Sciences Programming Documentation, Uses, and more
groff ACES Groff (GNU troff) is a typesetting system that reads plain text mixed with formatting commands and produces formatted output. It's a modern implementation of the classic Unix troff typesetting system. Typesetting, Text Formatting, Unix Utilities Computer & Information Sciences Typesetting System Documentation, Uses, and more
gromacs ACES
Anvil
Bridges-2
Delta
KyRIC
Ookami
Stampede3		 GROMACS (GROningen MAssive Parallel MD for Molecular Dynamics) is a versatile package for molecular dynamics simulations with a strong emphasis on high-performance computing capabilities. Molecular Dynamics, Simulation, High Performance Computing, Biomolecular Systems Chemistry, Biological Sciences Molecular Dynamics Software Documentation, Uses, and more
grpcio ACES Documentation, Uses, and more
gsl ACES
Anvil
Delta
DeltaAI
Stampede3		 The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It provides a wide range of mathematical routines such as special functions, linear algebra, interpolation, numerical integration, random numbers, and more. Numerical Library, Mathematical Functions, C Programming, C++ Programming Mathematics, Other Mathematics Library Documentation, Uses, and more
gslib ACES gslib is an open-source and free collection of Fortran 77 subroutines for geostatistical applications. Geostatistics, Fortran 77, Spatial Data, Variogram Modeling, Kriging Geoscience, Earth & Environmental Sciences Geospatial Analysis Tool Documentation, Uses, and more
gst-plugins-bad ACES gst-plugins-bad is a collection of GStreamer plugins and elements that are not of high quality, experimental, or have not been tested well. These plugins are considered 'bad' due to various reasons such as being incomplete, breaking or lacking proper documentation. Multimedia, Plugin, Gstreamer Computer & Information Sciences Plugin Documentation, Uses, and more
gst-plugins-base ACES gst-plugins-base is a collection of GStreamer plugins and elements, which serve as the base for GStreamer. These plugins provide essential functionalities for building audio and video processing pipelines in GStreamer-based applications. Audio Processing, Video Processing, Multimedia Framework Computer Science, Computer & Information Sciences Plugin Documentation, Uses, and more
gstreamer ACES
Anvil		 GStreamer is a multimedia framework that allows the construction of graphs of media-handling components, ranging from simple Ogg/Vorbis playback to complex audio (mixing) and video (non-linear editing) processing. It is designed to be easily extended with new plugins that provide new functionality. Multimedia, Framework, Media Processing, Audio, Video Computer & Information Sciences Framework Documentation, Uses, and more
gthumb Delta gthumb is an image viewer and browser for the GNOME desktop environment. It also includes features for organizing and managing images. Image Viewer, Image Browser, Image Management Other Computer & Information Sciences Desktop Application Documentation, Uses, and more
gtk2 ACES GTK2 is a cross-platform widget toolkit for creating graphical user interfaces. It is used in a variety of applications to provide a user-friendly interface. Gui, Widget Toolkit, Cross-Platform Biology, Computer & Information Sciences Gui Toolkit Documentation, Uses, and more
gtk3 ACES GTK3 is a widely-used toolkit for building graphical user interfaces and desktop applications. It provides a comprehensive set of tools and libraries for creating interactive and visually appealing applications across multiple platforms. Gui Toolkit, Desktop Application Development, Cross-Platform Development, User Interface Design Biology, Computer & Information Sciences Development Toolkit Documentation, Uses, and more
gtk4 ACES GTK4 is a multi-platform toolkit for creating graphical user interfaces. It is used for developing applications with a consistent look and feel across different operating systems. Gui Toolkit, Cross-Platform Development, User Interface Design Biology, Computer & Information Sciences Development Tool Documentation, Uses, and more
gts ACES GNU Triangulated Surface Library (GTS) is a free library for computational geometry. It includes many useful functions for calculating surface properties and constructing complex surfaces using triangulations. Computational Geometry, Surface Properties, Mesh Generation Computer & Information Sciences Computational Software Documentation, Uses, and more
guile ACES Guile is an implementation of the Scheme programming language, providing a flexible and embeddable scripting environment for applications. It aims to be a platform for creating applications and libraries that require customizations and extensibility. Programming Language, Scripting Language, Embeddable, Customizable Computer & Information Sciences Interpreter Documentation, Uses, and more
guppy Bridges-2 Guppy is a basecaller developed by Oxford Nanopore Technologies for processing raw electrical signal data generated by their nanopore sequencing devices. It is designed to convert the raw signal data into nucleotide sequences, providing a platform for downstream analysis in genomics research. Bioinformatics, Sequencing, Nanopore Sequencing, Genomics, DNA Sequencing Genomics, Biological Sciences Basecaller Documentation, Uses, and more
guppy-gpu Bridges-2 Guppy is a basecaller software for Oxford Nanopore sequencing data. The GPU version utilizes the power of graphics processing units to accelerate the basecalling process for faster and more efficient analysis of sequencing data. Basecaller, Oxford Nanopore, Sequencing, Gpu Acceleration Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
gurobi Anvil
Bridges-2
Delta		 Gurobi Optimization is a high-performance mathematical programming solver for linear programming (LP), mixed-integer programming (MIP), and other related optimization problems. Optimization, Mathematical Programming, Linear Programming, Mixed-Integer Programming Mathematics Solver Documentation, Uses, and more
gurobi-dev Delta Documentation, Uses, and more
gymnasium ACES Gymnasium is a Python library which provides tools and utilities for creating and manipulating complex mathematical expressions and equations. Python Library, Mathematical Expressions, Equation Manipulation Computer Science, Mathematics Programming Library Documentation, Uses, and more
gzip ACES
DeltaAI		 gzip is a file compression and decompression tool used to reduce the size of files for storage or transfer purposes. It is a widely used compression utility in Unix-like operating systems. File Compression, Data Storage, Data Transfer Engineering & Technology Compression Tool Documentation, Uses, and more
h5py ACES h5py is a Python library providing a high-level interface to the HDF5 library. It allows you to store huge amounts of numerical data and easily manipulate that data from NumPy. Python Library, Data Storage, Numerical Data, Data Manipulation Computer & Information Sciences Library Documentation, Uses, and more
hadoop Anvil
Delta
Expanse		 Hadoop is an open-source framework used for distributed storage and processing of large sets of data on computer clusters using simple programming models. Big Data, Data Processing, Distributed Computing Computer & Information Sciences Framework Documentation, Uses, and more
harfbuzz ACES
DeltaAI
Ookami		 HarfBuzz is an open-source text shaping engine. It is used to convert Unicode text to beautifully formatted and language-appropriate glyphs. HarfBuzz focuses on providing correct script shaping for complex scripts and languages. Text Shaping Engine, Unicode Text, Text Layout, Font Features Customization Computer & Information Sciences Library Documentation, Uses, and more
hashdeep Bridges-2 hashdeep is a cross-platform hashing utility that calculates and verifies hash signatures for files and directories. Hashing, Data Integrity, Security Computer & Information Sciences Hashing Documentation, Uses, and more
hatch-jupyter-builder ACES Documentation, Uses, and more
hatchling ACES Hatchling is a software tool designed for simulating and analyzing population dynamics in ecological studies, particularly focusing on early life stages of organisms such as fish, amphibians, and invertebrates. It allows researchers to model various environmental factors affecting the survival and growth of hatchlings in different ecosystems. Population Dynamics, Ecology, Simulation, Environmental Factors Environmental Biology, Biological Sciences Research Tool Documentation, Uses, and more
hdf ACES
Anvil		 HDF (Hierarchical Data Format) is a flexible and extensible file format for storing and managing large amounts of data. It supports various data types, attributes, and metadata, making it suitable for a wide range of scientific and engineering applications. Data Management, File Format, Data Visualization, Api Other Computer & Information Sciences File Format Documentation, Uses, and more
hdf-eos ACES HDF-EOS (Hierarchical Data Format - Earth Observing System) is a software library developed by NASA for managing and processing Earth science data in the HDF (Hierarchical Data Format) format. Data Management, Data Processing, Earth Science, Geospatial Data Earth & Environmental Sciences, Physical Sciences Library Documentation, Uses, and more
hdf-eos5 ACES HDF-EOS5 is a software library developed by NASA that provides tools and interfaces for working with EOS (Earth Observing System) data in the Hierarchical Data Format (HDF5) format. It is specifically designed for the management and analysis of Earth science data collected by various NASA missions. Nasa, Earth Observing System, Data Management, Data Analysis, Hdf5 Format Earth & Environmental Sciences, Natural Sciences Data Management & Analysis Documentation, Uses, and more
hdf5 ACES
Anvil
Bridges-2
Delta
DeltaAI
Expanse
Ookami
Stampede3		 HDF5 (Hierarchical Data Format version 5) is a file format and a suite of tools developed by the HDF Group for managing and storing large and complex data. It is designed to store and organize large amounts of data efficiently, enabling fast data access and sharing. File Format, Data Management, Data Storage, Data Sharing, High-Performance Computing Other Computer & Information Sciences Library/Tool Documentation, Uses, and more
hdf5-parallel DeltaAI Documentation, Uses, and more
hdf5_18 Expanse
Ookami		 Documentation, Uses, and more
heffte ACES Documentation, Uses, and more
help2man ACES help2man is a tool that can generate simple man pages from the '--help' and '--version' output of other commands. Documentation, Man Pages, Automation Software Engineering, Systems & Development, Engineering & Technology Utility Documentation, Uses, and more
hf-datasets ACES Documentation, Uses, and more
hh-suite ACES HH-suite is a software package for sensitive protein sequence searching based on profile hidden Markov models. It includes tools for the alignment of protein sequences, detecting remote homologs, and predicting protein structures. Protein Sequence Searching, Profile Hidden Markov Models, Protein Structure Prediction Biological Sciences Computational Software Documentation, Uses, and more
highfive Stampede3 Documentation, Uses, and more
highway ACES HighWay is an open-source statistical software tool designed for the identification of driver genes and pathways in cancer based on the analysis of somatic mutations across a cohort of tumor samples. Bioinformatics, Computational Biology, Statistical Analysis Bioinformatics, Biological Sciences Statistical Tool Documentation, Uses, and more
hipify ACES Documentation, Uses, and more
hiredis ACES Hiredis is a minimalistic C client library for the Redis database, offering a simple interface to interact with Redis servers from C-based applications. It aims to maintain an API that is both high-performance and easy to use, providing basic functionality to communicate with Redis servers. Redis, Database, C Library Computer & Information Sciences Library Documentation, Uses, and more
hisat2 ACES
Bridges-2
Delta		 HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) against the general human population (as well as against a single reference genome). It builds on HISAT and Bowtie, allowing for significantly improved performance and new capabilities. Alignment, Ngs, Genomics, Transcriptomics Biology, Biological Sciences Alignment Tool Documentation, Uses, and more
hmmer ACES
Bridges-2		 Hmmer is a software suite used for protein sequence analysis based on profile hidden Markov models (HMMs). It is widely used for searching sequence databases for homologs of protein sequences, identifying conserved protein domains, and annotating protein sequences based on sequence alignment. Bioinformatics, Computational Biology, Proteomics, Sequence Analysis Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
homer Bridges-2 HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for motif discovery and next-gen sequencing analysis. It is widely used for identifying transcription factor binding sites and novel motifs in DNA sequences. Bioinformatics, Next-Generation Sequencing, Motif Discovery, Transcription Factor Binding Sites Genetics, Biological Sciences Tool Documentation, Uses, and more
horovod ACES Horovod is a distributed deep learning training framework for TensorFlow, Keras, PyTorch, and MXNet. It significantly improves the speed and scale of distributed deep learning training. Deep Learning, Distributed Training, Machine Learning, Gpu Acceleration, High Performance Computing Computer & Information Sciences Library/Framework Documentation, Uses, and more
hpc-x ACES hpc-x is a high-performance computing (HPC) software package designed to provide optimized libraries, tools, and compilers for scientific computing on HPC systems. It aims to enhance the performance and efficiency of parallel computing applications on modern HPC architectures. Hpc, High-Performance Computing, Scientific Computing, Parallel Computing Engineering & Technology Hpc Tools Documentation, Uses, and more
hpctoolkit Anvil
Delta		 HPCToolkit is an integrated suite of tools for measurement and analysis of program performance on computers ranging from multicore desktop systems to the nation's largest supercomputers. By using statistical sampling of timers and hardware performance counters, HPCToolkit collects accurate measurements of a program's work, resource consumption, and inefficiency and attributes them to the full calling context in which they occur.
Description Source: http://hpctoolkit.org/		 Documentation, Uses, and more
hpl ACES The High Performance Linpack (HPL) benchmark is a tool for analyzing and ranking the performance of computer systems, particularly supercomputers. It measures the floating-point rate of execution for solving a dense system of linear equations. HPL is widely used to assess and compare the computational performance of High Performance Computing (HPC) systems. Hpc, Benchmarking, Performance Analysis Infrastructure & Instrumentation, Engineering & Technology Benchmarking Tool Documentation, Uses, and more
hprc_utils ACES hprc_utils is a collection of utility tools for managing and analyzing High Performance Computing (HPC) environments and workflows. Hpc, High Performance Computing, Utility Tools Engineering & Technology Tool Documentation, Uses, and more
htop Delta
DeltaAI
Ookami		 htop is an interactive system-monitor process-viewer for Unix systems. It provides a detailed overview of system performance and resource usage in a visually appealing and user-friendly interface. System Monitoring, Process Viewer, Resource Usage Engineering & Technology Monitoring Tool Documentation, Uses, and more
htseq ACES HTSeq is a Python library that provides efficient tools to work with high-throughput sequencing data. It offers functionalities to process and analyze sequence data from RNA-Seq experiments, particularly for quantification of gene and transcript expression levels. Bioinformatics, RNA-Seq, High-Throughput Sequencing, Gene Expression, Sequence Data Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
htslib ACES
Bridges-2
Delta		 HTSlib is a C library for processing high-throughput sequencing data in the form of SAM, BAM, and CRAM formats. It allows for efficient reading, writing, and manipulation of such files, as well as various operations such as format conversion, indexing, and retrieval of specific sequences. Bioinformatics, Sequencing Data, File Format Processing, C Library Genomics, Biological Sciences Data Processing Documentation, Uses, and more
huggingface_hub ACES Documentation, Uses, and more
humann ACES HUMAnN (HMP Unified Metabolic Analysis Network) is a tool for efficiently and accurately profiling the presence and abundance of microbial pathways in a community from metagenomic shotgun sequencing data. It combines sequence alignment and gene activity profiling to quantify the presence of pathway modules. Metagenomics, Microbiome, Pathway Analysis, Bioinformatics Biological Sciences Analysis Tool Documentation, Uses, and more
hunspell ACES Hunspell is a spell checker and morphological analyzer software designed for languages with rich morphology and complex word compounding. Spell Checker, Morphological Analyzer, Language Support Other Computer & Information Sciences Utility Documentation, Uses, and more
hwloc ACES
Anvil
Bridges-2
Expanse
KyRIC
Ookami		 hwloc, the Portable Hardware Locality (hwloc), is an open-source hierarchical machine topology library used to provide abstract representation of the hierarchical topology of modern architectures. Machine Topology, Hardware Architecture, System Software Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
hydra ACES Documentation, Uses, and more
hyper-shell Anvil hyper-shell is a command-line terminal replacement that aims to enhance the user experience and productivity through various features and customizations. Terminal Emulator, Productivity Tool, Command-Line Interface Computer & Information Sciences Command-Line Tool Documentation, Uses, and more
hyperopt ACES Hyperopt is a Python library for optimizing over arbitrary search spaces. The main goal of Hyperopt is to provide a flexible and expressive architecture for an optimization workforce, including hyperparameter optimization, machine learning and statistics. Optimization, Machine Learning, Statistics Computer & Information Sciences Documentation, Uses, and more
hypershell Anvil Documentation, Uses, and more
hypothesis ACES Hypothesis is a property-based testing tool for Python that helps in finding edge cases and identifying bugs by generating test data based on properties and invariants. Python Testing Tool, Property-Based Testing, Automated Test Generation Computer Science, Computer & Information Sciences Property-Based Testing Tool Documentation, Uses, and more
hypre ACES
Ookami
Stampede3		 HYPRE (High Performance Preconditioners) is a library of high performance preconditioners and solvers for the solution of large, sparse linear systems of equations on massively parallel computers. It provides scalable algorithms for solving large-scale scientific and engineering applications. Preconditioners, Solvers, Linear Systems, Sparse Matrices Applied Mathematics, Mathematics Computational Software Documentation, Uses, and more
iaf2 ACES Documentation, Uses, and more
iccifort ACES iccifort is a software tool that provides the Intel C++ and Fortran compilers for high-performance computing applications. These compilers are designed to optimize code performance for Intel processors. Compiler, High-Performance Computing, Optimization Engineering & Technology Programming Tool Documentation, Uses, and more
icon ACES Documentation, Uses, and more
icu ACES ICU (International Components for Unicode) is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU is utilized in a vast array of applications, operating systems, and devices to provide multilingual support. Unicode Support, Globalization, Localization, Internationalization, Unicode Libraries Computer & Information Sciences Libraries Documentation, Uses, and more
icu4c Delta
DeltaAI
KyRIC		 ICU (International Components for Unicode) is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU is widely portable and gives applications the same results on all platforms and between C/C++ and Java software. Unicode, Globalization, Cross-Platform, Libraries Computer & Information Sciences Development Documentation, Uses, and more
idev Stampede3 idev is a compiler wrapper that simplifies the use of Intel's data parallel C++ (DPC++) compiler for offloading computations to GPUs. Compiler Wrapper, Dpc++ Compiler, Gpu Offloading Computer Science, Computer & Information Sciences Tool Documentation, Uses, and more
idl Expanse
Stampede3		 IDL (Interactive Data Language) is a programming language used for data analysis, visualization, and application development. It provides a comprehensive set of tools for scientific research and data processing. Software, Data Analysis, Data Visualization, Scientific Research Physical Sciences Programming Language Documentation, Uses, and more
igprof ACES igprof is a lightweight, portable, and flexible performance profiling tool for C, C++, and Fortran applications. It provides insights into code performance and helps identify hotspots for optimization, with a focus on low-overhead and accurate measurements. Profiler, Performance Analysis, Code Optimization, Software Development Engineering & Technology Tool Documentation, Uses, and more
iimpi ACES IIMPI (Isobaric Ion Mobility Mass Spectrometry with Peak Integration) is a software tool specifically designed for analyzing ion mobility-mass spectrometry data with a focus on accurate peak integration in the presence of isobaric co-elution. Ion Mobility-Mass Spectrometry, Peak Integration, Data Analysis Bioinformatics, Biological Sciences Analytical Tool Documentation, Uses, and more
ijulia ACES Documentation, Uses, and more
imageio ACES Imageio is a Python library that provides an easy interface to read and write a wide range of image and video file formats. It allows for simple, high-level access to image data from Python code. Python Libraries, Image Processing, Data Visualization Computer & Information Sciences Python Library Documentation, Uses, and more
imagej ACES ImageJ is a public domain, Java-based image processing program developed at the National Institutes of Health. It is widely used for scientific image analysis and visualization. Image Processing, Scientific Tool, Java-Based, Open-Source Documentation, Uses, and more
imagemagick ACES
Delta
Ookami		 ImageMagick is a free and open-source software suite for creating, editing, composing, or converting bitmap images. Image Processing, Graphics Editing, Conversion Tool Computer & Information Sciences Utility Documentation, Uses, and more
imagenet ACES Documentation, Uses, and more
imake ACES imake is a software tool that automates the construction of imakefiles, which are used with the make utility in software development projects. It simplifies the process of generating makefiles for building software projects, allowing developers to focus on writing code rather than manually creating build configurations. Build Automation, Software Development, Build Configuration Software Engineering, Systems & Development, Engineering & Technology Automation Tool Documentation, Uses, and more
imath ACES iMath is a comprehensive computational software for mathematical modeling, simulation, and analysis. It provides a user-friendly interface for performing various mathematical and statistical computations. Mathematics, Computational Software, Simulation, Data Analysis Mathematics Mathematical Modeling & Analysis Software Documentation, Uses, and more
imb KyRIC IMB stands for In-Memory Database benchmark. It is a benchmarking tool specifically designed to evaluate the performance of in-memory databases. Benchmarking, In-Memory Databases Computer & Information Sciences Tool Documentation, Uses, and more
imbalanced-learn ACES Imbalanced-learn is a Python library designed to tackle the problem of imbalanced datasets in machine learning. It provides a set of tools and techniques to deal with classification tasks where the distribution of classes is skewed, with one class significantly more frequent than the others. Imbalanced Datasets, Machine Learning, Classification Tasks, Python Library, Over-Sampling, Under-Sampling, Ensemble Techniques Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Python Library Documentation, Uses, and more
imkl ACES imkl is a open-source software library for creating and managing knowledge graphs for various applications in artificial intelligence, data science, and information retrieval. Software Library, Knowledge Graph, Artificial Intelligence, Data Science, Information Retrieval Computer & Information Sciences, Artificial Intelligence & Intelligent Systems Open-Source Documentation, Uses, and more
imkl-fftw ACES imkl-fftw is a library that combines Intel Math Kernel Library (IMKL) with FFTW (Fastest Fourier Transform in the West) for high-performance computation of Fourier transforms on Intel architectures. Software Library, Math Library, Mathematical Computation, Fourier Transforms, High-Performance Computing Mathematics Mathematical Computation Documentation, Uses, and more
iml ACES Interpretable Machine Learning Machine Learning, Interpretability, Model Explanation Computer & Information Sciences R Package Documentation, Uses, and more
impi ACES
Anvil
Bridges-2		 impi is a high-performance message passing library that provides asynchronous messaging and queuing functionalities for parallel computing applications. Message Passing Library, Parallel Computing, Asynchronous Messaging Engineering & Technology Communication Library Documentation, Uses, and more
impute2 Delta IMPUTE2 is a tool for imputing ungenotyped markers in large-scale genome-wide association studies. Genotype Imputation, Genome-Wide Association Studies, Bioinformatics Genetics, Biological Sciences Tool Documentation, Uses, and more
infernal ACES
Bridges-2		 Infernal is a software for searching DNA sequence databases for RNA structure and sequence similarities. It is used to align RNA sequences to RNA sequence and structural models. RNA Sequence Analysis, Bioinformatics, Sequence Alignment Documentation, Uses, and more
init_opencl KyRIC init_opencl is a software library that is used to initialize OpenCL platforms and create OpenCL contexts for parallel computing applications. Software, Compiler, Library, Hpc Computer & Information Sciences Software Development Documentation, Uses, and more
inputproto Delta
DeltaAI		 A package that provides the headers used to compile Xlib clients. Software Development, Headers, Xlib Computer & Information Sciences Library Documentation, Uses, and more
inspector KyRIC Inspector is a software tool used for monitoring and analyzing various aspects of computer systems and networks to detect and prevent security breaches or performance issues. Monitoring, Security, Network Analysis Computer Science, Computer & Information Sciences Security Software Documentation, Uses, and more
intel compiler ACES
Bridges-2
Expanse
Jetstream2
KyRIC
Ookami		 The Intel Compiler is a suite of high-performance compilers from Intel for various programming languages, including C, C++, and Fortran. It is designed to maximize application performance on Intel architecture-based processors. Compiler, Optimization, Performance, Debugging Computer & Information Sciences Development Tools Documentation, Uses, and more
intel oneapi compiler Stampede3 Documentation, Uses, and more
intel(r) mpi library Stampede3 Documentation, Uses, and more
intel-advisor Bridges-2 Documentation, Uses, and more
intel-ccl Bridges-2 Documentation, Uses, and more
intel-cluster-runtime Ookami Documentation, Uses, and more
intel-compiler Bridges-2 The Intel Compiler suite is a set of optimizing compilers with support for C, C++, and Fortran languages. It provides advanced optimizations and performance tuning for applications running on Intel architecture-based platforms. Compiler, Optimization, Performance, Parallelization Computer Science, Computer & Information Sciences Development Tools Documentation, Uses, and more
intel-compiler-rt Bridges-2 The Intel Compiler Runtime Library (Intel Compiler RT) is a collection of runtime libraries for the Intel software development tools, designed to provide support for various runtime components in software applications compiled with Intel compilers. Compiler, Runtime Library, Performance Optimization Computer & Information Sciences Compiler Runtime Library Documentation, Uses, and more
intel-compiler-rt32 Bridges-2 Documentation, Uses, and more
intel-compiler32 Bridges-2 Documentation, Uses, and more
intel-compilers ACES Intel C, C++ & Fortran compilers (classic and oneAPI) Documentation, Uses, and more
intel-dal Bridges-2 Intel Dynamic Application Loader (DAL) is a framework that enables applications to dynamically load and execute small code modules. It provides a secure environment for executing trusted applications on Intel platforms. Security, Intel Platform, Dynamic Code Loading, Trusted Applications Documentation, Uses, and more
intel-debugger Bridges-2 Documentation, Uses, and more
intel-dev-utilities Bridges-2 Documentation, Uses, and more
intel-dnnl Bridges-2 Documentation, Uses, and more
intel-dnnl-cpu-gomp Bridges-2 Documentation, Uses, and more
intel-dnnl-cpu-iomp Bridges-2 The Intel oneAPI Deep Neural Network Library (DNNL) for CPU with Intel oneAPI Math Kernel Library (iomp) is a high-performance library for deep learning applications optimized for Intel CPUs. It provides highly optimized functions for deep learning frameworks and applications to accelerate training and inference tasks. Deep Learning, Cpu Optimization, Neural Networks Computer & Information Sciences Tool Documentation, Uses, and more
intel-dnnl-cpu-tbb Bridges-2 Intel oneAPI Deep Neural Network Library (DNNL) for CPU with Threading Building Blocks (TBB) support is a high-performance library for deep learning applications. It provides optimized building blocks for implementing deep neural networks on Intel CPUs. Deep Learning, Neural Networks, Cpu Optimization, Threading Building Blocks Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Deep Learning Library Documentation, Uses, and more
intel-dpct Bridges-2 Intel Data Parallel C++ (DPC++) Compatibility Tool (dpct) is a tool developed by Intel to facilitate migration of CUDA kernels to Data Parallel C++ (DPC++) for seamless porting to heterogeneous platforms. Intel, Data Migration, Cuda, Dpc++, Heterogeneous Computing Computer & Information Sciences Compiler Documentation, Uses, and more
intel-dpl Bridges-2 Intel-DPL (Data Parallel Library) is a software library that enables developers to write parallel programs in a natural and expressive way, without needing to have expertise in parallel programming. It helps in achieving high performance in parallel computing tasks by utilizing task parallelism and data parallelism. Parallel Programming, High Performance Computing, Intel Architecture Computer & Information Sciences Development Tool Documentation, Uses, and more
intel-icc Bridges-2 Documentation, Uses, and more
intel-icc32 Bridges-2 The intel-icc32 compiler is a part of the Intel Compiler Suite specifically designed for 32-bit architectures. It provides a set of tools and libraries for optimizing and building applications for Intel processors. Compiler, Software Development, Optimization Computer & Information Sciences Development Tools Documentation, Uses, and more
intel-inspector Bridges-2 The Intel Inspector is a dynamic memory and threading error checking tool for users developing serial and multithreaded applications on Windows or Linux operating systems. It helps developers find memory and threading errors early in the code development cycle to eliminate costly and time-consuming issues that might otherwise arise later in the development phase or in the field. Software, Development, Debugging, Memory Management, Multithreading Engineering & Technology Memory & Threading Error Checker Documentation, Uses, and more
intel-ipp-ia32 Bridges-2 Intel Integrated Performance Primitives (Intel IPP) for IA-32 architecture is a software library that provides a comprehensive set of high-performance functions for building advanced applications in various domains. It offers optimized routines for signal and data processing, image processing, cryptography, and more. Software Library, Performance Optimization, Signal Processing, Image Processing, Cryptography Computer Science, Computer & Information Sciences Shared Library Documentation, Uses, and more
intel-ipp-intel64 Bridges-2 Documentation, Uses, and more
intel-ippcp-ia32 Bridges-2 Intel Integrated Performance Primitives (IPP) Cryptography (IPP-Crypto) is a library of high-performance cryptographic and security functions optimized for Intel processors. It provides developers with a broad range of encryption, digital signature, and authentication functionality to secure data and communications. Software Library, Cryptography, Security Computer & Information Sciences Program Library Documentation, Uses, and more
intel-ippcp-intel64 Bridges-2 Documentation, Uses, and more
intel-itac Bridges-2 Documentation, Uses, and more
intel-mkl Anvil
Bridges-2		 Intel Math Kernel Library (MKL) contains ScaLAPACK, LAPACK, Sparse Solver, BLAS, Sparse BLAS, CBLAS, GMP, FFTs, DFTs, VSL, VML, and Interval Arithmetic routines. Documentation, Uses, and more
intel-mkl32 Bridges-2 Documentation, Uses, and more
intel-oclfpga Bridges-2 The Intel OneAPI Base Toolkit for OpenCL FPGA is a comprehensive suite of development tools for accelerating workloads on Intel FPGA devices. It provides a unified programming model for CPU, GPU, and FPGA to simplify application development and deployment across diverse hardware architectures. Development Tools, Accelerating Workloads, Fpga Programming, Hardware Acceleration Computer Science, Computer & Information Sciences Compiler Documentation, Uses, and more
intel-oneapi Bridges-2 Documentation, Uses, and more
intel-oneapi-compilers Delta Documentation, Uses, and more
intel-oneapi-mkl Delta Documentation, Uses, and more
intel-parallel-studio Anvil Documentation, Uses, and more
intel-tbb Bridges-2
Delta		 Documentation, Uses, and more
intel-tbb32 Bridges-2 Intel Threading Building Blocks (TBB) is a widely-used C++ library for parallelism. It provides a way to write parallel C++ programs that take full advantage of multi-core processors. Parallelism, C++, Multi-Core, Library Computer & Information Sciences, Computer Science, Applied Computer Science Library Documentation, Uses, and more
intel-vtune Bridges-2 Documentation, Uses, and more
intel/aikit ACES Documentation, Uses, and more
intel_ai_toolkit Delta Documentation, Uses, and more
intel_ipp_ia32 KyRIC Documentation, Uses, and more
intel_ipp_intel64 KyRIC Intel Integrated Performance Primitives (Intel IPP) provides high-performance software libraries that are designed to help developers improve the performance of their applications. Intel IPP offers a wide range of functions that are optimized for Intel architecture, including signal, imaging, cryptography, and data processing algorithms. Software Development, Performance Optimization, Data Processing, Signal Processing, Image Processing, Cryptography Computer & Information Sciences, Software Engineering, Systems & Development Commercial Documentation, Uses, and more
intel_ippcp_ia32 KyRIC Intel Integrated Performance Primitives - Cryptography (IPP-Crypto) is a library that provides highly optimized building blocks for a variety of encryption and decryption algorithms on Intel architecture processors. It aims to accelerate cryptographic operations to enhance performance in software applications. Cryptographic Library, Performance Optimization, Intel Architecture Computer & Information Sciences Compiler/Library Documentation, Uses, and more
intel_ippcp_intel64 KyRIC Intel Integrated Performance Primitives Cryptography (IPP Cryptography) is a collection of highly optimized cryptographic functions and algorithms developed by Intel for high-performance computing applications. It provides a set of cryptographic functions optimized for Intel processors to enhance the security and performance of cryptographic operations in software. Cryptography, High-Performance Computing, Intel Processors, Security Computer & Information Sciences Optimization Library Documentation, Uses, and more
intelclusterchecker ACES Documentation, Uses, and more
intelmpi Bridges-2 Intel MPI Library focuses on enabling applications to perform better on Intel architecture-based clusters. It enables applications to gain faster communication performance on Intel Xeon Phi coprocessors and Intel Xeon processors. Hpc, Mpi Library, Intel Architecture Engineering & Technology Library Documentation, Uses, and more
intelpython ACES Documentation, Uses, and more
intermol Bridges-2 Documentation, Uses, and more
intervaltree ACES Documentation, Uses, and more
intltool ACES Intltool is a set of tools to centralize translation of many different file formats using a single language-styled file. Localization, Translation, Internationalization Computer & Information Sciences Localization Tool Documentation, Uses, and more
ior Delta ior is a versatile software tool for analyzing and optimizing input/output (I/O) performance in high-performance computing (HPC) systems. It is designed to assess and improve the efficiency of data transfer operations in parallel computing environments. High-Performance Computing, Parallel Computing, I/O Optimization Computer Science Utility Software Documentation, Uses, and more
iozone Expanse
Ookami		 Documentation, Uses, and more
iperf3 Delta
DeltaAI		 iperf3 is a tool for actively measuring the maximum achievable bandwidth on IP networks. It supports various parameters to customize the testing process and is widely used for network performance testing and tuning. Network Testing, Bandwidth Measurement, Network Performance Computer & Information Sciences Tool Documentation, Uses, and more
ipmitool Expanse
Ookami		 ipmitool is an open-source utility for managing and configuring devices that support the Intelligent Platform Management Interface (IPMI) specification. It allows users to interact with IPMI-enabled devices to retrieve information, perform system management tasks, and monitor hardware sensors remotely. System Management, Hardware Monitoring, Remote Administration, Open Source Engineering & Technology Utility Documentation, Uses, and more
ipython ACES IPython is a powerful interactive command shell that provides a robust and flexible environment for interactive computing. It offers features such as easy-to-use, high-performance tools for parallel computing, data visualization, and data analysis. Command Shell, Interactive Computing, Data Visualization, Parallel Computing, Data Analysis Computer Science, Computer & Information Sciences Development Tools Documentation, Uses, and more
irkernel ACES Documentation, Uses, and more
irods-icommands Bridges-2 iCommands, the default command line interface to iRODS. Documentation, Uses, and more
isa-l ACES ISA-L (Intel Storage Acceleration Library) is a collection of optimized low-level functions used in storage applications. It is specifically designed to offer high-performance data movement and protection functions for storage and data processing workloads, leveraging Intel hardware capabilities. Optimized Functions, Data Movement, Data Protection, Storage Applications Engineering & Technology Documentation, Uses, and more
isl ACES ISL (Integer Set Library) is a library for manipulating sets and maps of integer points bounded by linear constraints. It provides functions for computing the integer points in a set or projection of a set represented as unions of polyhedra, as wells as their images under affine transformations. Library, Integer Points, Linear Constraints Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
itac KyRIC
Stampede3		 Intel Trace Analyzer and Collector (ITAC) is a performance analysis tool designed for parallel applications. It provides in-depth performance data to help developers optimize the performance of their parallel code. Performance Analysis, Parallel Applications, Optimization Computer & Information Sciences Compiler Documentation, Uses, and more
itk ACES The Insight Segmentation and Registration Toolkit (ITK) is an open-source, cross-platform library that provides advanced image processing algorithms for registering and segmenting multidimensional scientific images. Image Processing, Medical Imaging, Scientific Images Medical & Health Sciences, Engineering & Technology Image Analysis Documentation, Uses, and more
jansson ACES Jansson is a C library for encoding, decoding, and manipulating JSON data. It is designed to be efficient, powerful, and easy to use for integrating JSON parsing and generation capabilities into C/C++ applications. Json, C Library, Data Parsing, Data Manipulation Computer & Information Sciences Data Processing Documentation, Uses, and more
jasper ACES
Delta		 JasPer (JPEG-2000 Part-1 Suite) is an open-source software implementation of the JPEG-2000 Part-1 standard. It provides a complete set of tools for encoding and decoding JPEG-2000 streams, including color space conversion, wavelet transforms, quantization, and entropy coding. Image Processing, Open-Source, Jpeg-2000 Computer Science, Computer & Information Sciences Image Processing Documentation, Uses, and more
java ACES Java is a widely-used programming language and computing platform that is designed to be fast, secure, and reliable. It is commonly used for building mobile applications, web applications, enterprise applications, and more. Programming Language, Computing Platform Computer & Information Sciences Compiler Documentation, Uses, and more
jax ACES
Delta		 JAX is an open-source software library for high-performance machine learning research, particularly for automatic differentiation, and numerical and scientific computing. Machine Learning, Numerical Computing, Scientific Computing Computer & Information Sciences Machine Learning Documentation, Uses, and more
jbigkit ACES JBIG-KIT is a software implementation of the JBIG1 data compression standard (ITU-T T.82), which was designed for bi-level image data, such as scanned documents. This library is available in portable C code. It is widely used in fax products, printer firmware, printer drivers, document management systems and imaging software.
Description Source: https://www.cl.cam.ac.uk/~mgk25/jbigkit/		 Documentation, Uses, and more
jedi ACES Documentation, Uses, and more
jellyfish ACES Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA sequences. It has the capability to efficiently store and query k-mer counts in large sequencing datasets. K-Mer Counting, DNA Sequences, Sequence Analysis Biological Sciences Bioinformatics Tool Documentation, Uses, and more
jemalloc ACES jemalloc is a general-purpose memory allocator implementation designed for high performance in multithreaded applications. It is widely used in the software industry to optimize memory allocation and improve overall performance of applications. Memory Allocator, Performance Optimization, Multithreading Computer & Information Sciences Memory Allocator Documentation, Uses, and more
jmol ACES Jmol is an open-source Java viewer for chemical structures in 3D with features for visualization, analysis, and manipulation of molecular structures. Molecular Visualization, Molecular Analysis, Chemistry Physical Chemistry, Inorganic & Nuclear Chemistry, Chemical Sciences Modeling & Simulation Documentation, Uses, and more
json-c ACES
DeltaAI
KyRIC		 Json-c is a C library for encoding, decoding, and manipulating JSON data. It provides functions for parsing JSON input, creating JSON output, manipulating JSON data structures, and validating JSON data. C Library, Json Encoding, Json Decoding, Data Manipulation Computer Science, Computer & Information Sciences Data Processing Documentation, Uses, and more
json-glib DeltaAI Documentation, Uses, and more
jsonc Stampede3 Documentation, Uses, and more
jsoncpp ACES JsonCpp is a C++ library that allows manipulating JSON data structures. It provides features for parsing, generating, and manipulating JSON data in C++ applications. C++, Json, Library, Data Manipulation Computer & Information Sciences Development Tools Documentation, Uses, and more
judy ACES Judy is a C library that provides a collection of functions to efficiently manage data arrays to store and retrieve key/value pairs. C Library, Data Management, Key/Value Pairs Other Computer & Information Sciences Data Management Documentation, Uses, and more
julia ACES
Anvil
Bridges-2
Delta
Ookami		 Julia is a high-level, high-performance dynamic programming language for technical computing, with syntax that is familiar to users of other technical computing environments. It provides a sophisticated compiler, distributed parallel execution, numerical accuracy, and extensive mathematical function libraries. Programming Language, Technical Computing, High-Performance Computing, Scientific Computing, Numerical Analysis Computer & Information Sciences Compiler Documentation, Uses, and more
julia_tamu ACES Documentation, Uses, and more
jupyter Anvil
Ookami		 Jupyter is an open-source web application that allows you to create and share documents that contain live code, equations, visualizations, and narrative text. It supports over 40 programming languages, including Python, R, and Julia, and is widely used in data science, scientific computing, and machine learning projects. Data Science, Scientific Computing, Machine Learning Computer & Information Sciences Web Application Documentation, Uses, and more
jupyter-bundle ACES Documentation, Uses, and more
jupyter-notebook Ookami Documentation, Uses, and more
jupyter-resource-usage ACES Documentation, Uses, and more
jupyter-server ACES Jupyter server is a flexible and extensible tool that allows users to run interactive computational environments in various programming languages. It provides a web-based interface for running Jupyter notebooks, code, and data analysis. Interactive Computing, Web-Based Interface, Notebooks Computer & Information Sciences Compiler Documentation, Uses, and more
jupyter-server-proxy ACES Documentation, Uses, and more
jupyterhub ACES JupyterHub brings the power of Jupyter Notebooks to groups of users. It allows multiple users to access Jupyter Notebooks through a browser, providing a collaborative and interactive environment for data science, scientific computing, and other computational tasks. Data Science, Collaborative Computing, Notebook Environment, Interactive Computing Informatics, Analytics & Information Science, Computer & Information Sciences Collaborative Tool Documentation, Uses, and more
jupyterlab ACES JupyterLab is a web-based interactive development environment for Jupyter notebooks, code, and data. It offers a flexible and powerful user interface to work with data, code, and visualization in a seamless manner. Interactive Computing, Data Visualization, Jupyter Notebooks, Web-Based Interface, Code Editing Computer & Information Sciences Data Science Tool Documentation, Uses, and more
jupyterlmod ACES jupyterlmod is an extension for Jupyter Notebooks that allows users to interact with Lmod, the Environment Modules System, directly within the Jupyter environment. It enables users to manage software environments, load and unload modules, and handle environment variables conveniently within Jupyter Notebook. Jupyter Notebook, Environment Modules, Software Environment Management Other Natural Sciences Extension Documentation, Uses, and more
jupyternotebook ACES The Jupyter Notebook is the original web application for creating and sharing computational documents. It offers a simple, streamlined, document-centric experience. Documentation, Uses, and more
kahip ACES KaHIP (Karlsruhe High Quality Partitioning) is a family of graph partitioning programs that aims to efficiently compute high-quality graph partitions. It provides several partitioning algorithms to balance computational load and minimize communication overhead. KaHIP is suitable for large-scale parallel applications and is widely used in the field of high-performance computing. Graph Partitioning, High-Performance Computing, Parallel Computing Computer Science, Computer & Information Sciences Utility Documentation, Uses, and more
kaleido ACES Documentation, Uses, and more
kalign ACES Kalign is a fast and accurate multiple sequence alignment algorithm that utilizes the Wu-Manber approximate string matching algorithm to efficiently align large sets of sequences. It is commonly used in bioinformatics for aligning DNA, RNA, and protein sequences. Bioinformatics, Sequence Alignment, DNA, RNA, Protein, Wu-Manber Algorithm Biological Sciences Bioinformatics Tool Documentation, Uses, and more
kallisto ACES kallisto is a program for quantifying abundances of transcripts from RNA-Seq data, using pseudoalignment to quickly determine compatibility of reads with targets, allowing rapid transcript quantification. RNA-Seq, Transcriptomics, Bioinformatics, Gene Expression Analysis, Computational Biology Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
kblas-gpu ACES KBLAS is a GPU-accelerated linear algebra library for high-performance computing (HPC) applications. It provides optimized implementations of basic linear algebra subroutines (BLAS) and dense matrix operations for NVIDIA GPUs. Linear Algebra, Gpu-Accelerated, Hpc, Parallel Computing Engineering & Technology Computational Software Documentation, Uses, and more
kbproto Delta
DeltaAI		 The kbproto package provides the core XKB protocol and extension definitions for usage with X11 protocol libraries. X11 Protocol, Keyboard Properties Computer Science, Computer & Information Sciences Protocol Documentation, Uses, and more
keras ACES
Anvil
Delta		 Keras is an open-source neural network library written in Python. It is capable of running on top of TensorFlow, Microsoft Cognitive Toolkit, Theano, or PlaidML. Designed with user-friendliness and modularity as its guiding principles, Keras is known for its ease of use and flexibility, allowing users to experiment with deep neural networks. Neural Networks, Deep Learning, Machine Learning Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Library Documentation, Uses, and more
kim-api ACES The Knowledgebase for Interatomic Models (KIM) Application Programming Interface (API) is an open framework for the development of interoperable atomistic and multiscale simulation codes. It provides a common interface for atomistic simulations and facilitates the incorporation and sharing of interatomic models. Computational Software, Hpc Tools Materials Science, Physical Sciences Application Programming Interface Documentation, Uses, and more
kineto ACES Kineto is a software suite designed for analyzing and simulating the dynamics of mechanical systems. It provides tools for both kinematic and dynamic analysis of systems with rigid bodies, joints, and constraints. Kineto is particularly useful for studying the motion and forces in complex mechanical systems. Mechanical Engineering, Simulation, Mechanical Systems, Kinematics, Dynamics Engineering & Technology Analysis Tool Documentation, Uses, and more
kmcp ACES Documentation, Uses, and more
knime Bridges-2 KNIME is an open-source data analytics, reporting, and integration platform. It allows users to visually design data flows, execute data processing, data cleansing, analysis, and reporting without needing to write any code. Data Analytics, Data Integration, Data Visualization Informatics, Analytics & Information Science, Computer & Information Sciences Data Analysis Tool Documentation, Uses, and more
kokkos Delta
Ookami
Stampede3		 Kokkos is a programming model for writing performance portable parallel applications in C++. It allows developers to write code once and run efficiently on multiple types of heterogeneous architectures. Programming Model, Performance Portability, Parallel Computing Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
kraken2 ACES
Bridges-2
Delta		 Kraken 2 is the newest version of Kraken, a taxonomic classification system using exact k-mer matches to achieve high accuracy and fast classification speeds. This classifier matches each k-mer within a query sequence to the lowest common ancestor (LCA) of all genomes containing the given k-mer. The k-mer assignments inform the classification algorithm.
Description Source: https://github.com/DerrickWood/kraken2/wiki/About-Kraken-3		 Documentation, Uses, and more
krb5 Anvil Documentation, Uses, and more
kubernetes Expanse Documentation, Uses, and more
lame ACES LAME is a high-quality MPEG Audio Layer III (MP3) encoder licensed under the GNU Lesser General Public License (LGPL). It is considered one of the best MP3 encoders available. Audio Encoding, Mp3, Open-Source Other Engineering & Technologies Encoder Documentation, Uses, and more
lammps ACES
Anvil
Bridges-2
Delta
DeltaAI
Ookami
Stampede3		 LAMMPS (Large-scale Atomic/Molecular Massively Parallel Simulator) is a classical molecular dynamics code designed for simulating large-scale atomistic systems. It is highly versatile and can be used to model a wide range of materials and complex molecular structures. Molecular Dynamics, Simulation, Computational Chemistry Physical Chemistry, Chemical Sciences Code/Package Documentation, Uses, and more
lapack Ookami LAPACK (Linear Algebra PACKage) is a software library for numerical linear algebra that provides routines for solving systems of simultaneous linear equations, least-squares solutions of linear systems of equations, eigenvalue problems, and singular value problems. Numerical Linear Algebra, Software Library, Mathematics Mathematics,Engineering, Mathematics Library Documentation, Uses, and more
lasso-python ACES Lasso-python is a Python library that provides tools for lasso regression, a linear regression technique that performs variable selection and regularization to improve the model's prediction and interpretability. Python Library, Machine Learning, Regression Analysis Statistics & Probability, Mathematics Library Documentation, Uses, and more
launcher Anvil Launcher is a software application that provides a centralized platform for accessing and managing various files, programs, and tools on a computer system. It serves as a customizable tool for organizing shortcuts and quick access to frequently used resources. Software Management, File Organization, Shortcut Access System Tool Documentation, Uses, and more
lazygit Bridges-2 lazygit is a simple terminal UI for git commands, with the ability to easily view and manage changes in repositories. Version Control, Git, Terminal Ui, Software Development Engineering & Technology Tools Documentation, Uses, and more
learning Anvil Documentation, Uses, and more
leptonica ACES
Delta		 Leptonica is an open-source image processing and image analysis library. It provides a wide range of image processing functions and is used for tasks such as image enhancement, binarization, morphology, and more. Leptonica is written in C and provides bindings for various programming languages. Image Processing, Image Analysis, Open-Source, Library, C Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
lerc ACES LERC (Limited Error Raster Compression) is an algorithm for raster data compression that provides high compression ratios with minimal loss in data quality. It is commonly used in geospatial applications to reduce storage space and transmission times for large raster datasets. Compression, Raster Data, Geospatial Applications Earth & Environmental Sciences, Other Natural Sciences Algorithm Documentation, Uses, and more
leveldb ACES LevelDB is a fast key-value storage library designed by Google that provides an ordered mapping from string keys to string values. It has features like high performance, low latency reads, low write amplification, data compression, and automatic data compaction. LevelDB is written in C++ and is optimized for use in embedded systems and applications requiring persistent storage. Storage, Database Computer & Information Sciences Library Documentation, Uses, and more
levmar ACES Documentation, Uses, and more
libaec ACES libaec is a C library for lossless image compression. Image Compression, Lossless Compression Computer & Information Sciences Compression Documentation, Uses, and more
libaio ACES
Delta
KyRIC		 libaio is a library that provides a Linux-native asynchronous I/O facility to applications. It allows applications to perform I/O operations without being blocked, thus improving performance by enabling concurrent I/O operations. I/O Library, Linux Library, Asynchronous I/O Computer & Information Sciences Operating System Library Documentation, Uses, and more
libarchive ACES libarchive is a programming library that can create and read several different streaming archive formats, including most popular tar variants, cpio, and zip. It can also write entry content directly to or read entry content directly from memory, and provides hooks to read and write the entry content as it is processed. Program is available in C and C++. Programming Library, Archive, Compression, Data Management Computer & Information Sciences Data Management Documentation, Uses, and more
libassuan ACES Documentation, Uses, and more
libatomic_ops ACES Libatomic_ops is a library implementing atomic memory access operations for use in concurrent programming. It provides a number of low-level memory access and synchronization operations which can be used in lock-free data structures and for inter-thread communication without the need for locks. Concurrent Programming, Atomic Operations, Memory Access, Synchronization Computer & Information Sciences Development Tool Documentation, Uses, and more
libbsd Anvil
Delta
DeltaAI
KyRIC		 libbsd is a library that provides functions typically found in the BSD operating systems. It aims to offer a more portable solution for developers needing BSD functions on non-BSD systems. Library, Bsd, Operating System Computer & Information Sciences Library Documentation, Uses, and more
libcap-devel Ookami The libcap-devel package contains the development files and documentation for the libcap library. This library implements the user-space interfaces to the POSIX 1003.1e capabilities available in Linux kernels. Library, Development, Documentation Computer & Information Sciences Library Documentation, Uses, and more
libcerf ACES
DeltaAI		 libcerf is a C library that provides efficient and accurate implementations of complex error functions, along with Dawson, Fresnel, and Voigt functions. The library is designed to facilitate the computation of complex error functions for a wide range of applications in scientific computing. Error Functions, Scientific Computing, C Library Mathematics Library Documentation, Uses, and more
libdap ACES The libdap (Data Access Protocol) library is a software package that provides an implementation of DAP (Data Access Protocol) for accessing and sharing scientific data over the internet. DAP is a protocol that allows users to access and query remote data repositories in a unified and standardized manner. Data Access, Scientific Data, Internet Protocol Other Computer & Information Sciences Data Access Documentation, Uses, and more
libde265 ACES Documentation, Uses, and more
libdeflate ACES libdeflate is a library for fast, flexible, and memory-efficient DEFLATE-based compressed data decompression. Compression, Data Decompression Computer & Information Sciences Compression Documentation, Uses, and more
libdivsufsort ACES Documentation, Uses, and more
libdrm ACES Direct Rendering Manager (DRM) library for interacting with kernel mode-setting (KMS) drivers, particularly the Direct Rendering Infrastructure (DRI) modules in the Linux kernel. Graphics, Linux, Kernel, Driver Documentation, Uses, and more
libedit KyRIC libedit is an open-source library that provides a readline-like interface for line editing in command-line applications. It is a replacement for GNU Readline used in many Unix-like systems, providing similar functionality but with a more permissive open-source license (BSD-style license). Library, Command-Line, Line Editing, History, Open-Source Computer & Information Sciences Tool Documentation, Uses, and more
libepoxy ACES libepoxy is a library for handling OpenGL function pointer management. It makes it easy to call OpenGL functions and to know when extensions are available. Opengl, Library, Graphics Computer & Information Sciences Development Documentation, Uses, and more
libev ACES libev is a high-performance event loop that provides a full-featured alternative to the event loop provided by the standard C library. It is designed for high scalability and low latency applications. Event Loop, High Performance, Scalable, Low Latency, Operating System Independent Computer & Information Sciences Library Documentation, Uses, and more
libevent ACES
KyRIC		 libevent is a robust event notification library that provides a mechanism to execute a callback function when specific events occur on a file descriptor or after a timeout has been reached. It is designed to be highly efficient and versatile, capable of handling various types of events in a scalable manner. Event Notification, Callback Functions, Scalable, Efficient Computer & Information Sciences Development Documentation, Uses, and more
libfabric ACES
Anvil
Delta
DeltaAI
KyRIC
Ookami		 libfabric is a high-performance library for fabric interfaces, designed to abstract fabric communication resources to applications while providing flexibility to applications that need to bypass the fabric interfaces. It provides fabric-agnostic interfaces for communication in high-performance computing (HPC) environments. Fabric Interfaces, High-Performance Computing, Communication Resources Computer Science, Engineering & Technology Communication Library Documentation, Uses, and more
libffi ACES
Anvil
Delta
DeltaAI
KyRIC
Ookami		 libffi is a library that provides a portable, high-level programming interface to various calling conventions. It allows a C function to be called from a language other than C without having to hand-write assembly code. Library, Portability, Calling Conventions Computer & Information Sciences Development Tool Documentation, Uses, and more
libflame Anvil libflame is a portable library for dense matrix computations, providing high-performance implementations of the BLAS and LAPACK interfaces. Linear Algebra, Matrix Computations, Numerical Computation Applied Mathematics, Mathematics Numerical Computing Documentation, Uses, and more
libfontenc DeltaAI Documentation, Uses, and more
libfyaml ACES Documentation, Uses, and more
libgcrypt ACES Libgcrypt is a general-purpose cryptographic library originally based on code from GnuPG. It provides various cryptographic algorithms to secure data and communications. Cryptography, Security, Encryption Computer Science, Computer & Information Sciences Cryptographic Library Documentation, Uses, and more
libgd ACES
DeltaAI
Ookami		 Libgd is an open-source graphics library. It allows your code to quickly draw images complete with lines, arcs, text, multiple colors, cut and paste from other images, and flood fills. It can generate WBMP files on the fly. It is also compatible with PHP. Graphics Library, Image Manipulation, Php Library Other Computer & Information Sciences Graphics Library Documentation, Uses, and more
libgeotiff ACES
DeltaAI		 Libgeotiff is a library for reading and writing coordinate system information embedded in geotiff files. Geotiff, Metadata, Coordinates, Geospatial Earth & Environmental Sciences File Handling Documentation, Uses, and more
libgit2 ACES
Ookami		 libgit2 is a portable, pure C implementation of the Git core methods provided as a re-entrant linkable library with a solid API, allowing you to write native speed custom Git applications in any language which supports C bindings. Version Control System, Git, Library Computer & Information Sciences Version Control System Documentation, Uses, and more
libglu ACES libglu is a software library that provides support for building OpenGL applications. It is designed to complement the functionality provided by OpenGL and aids in handling complex geometric shapes, tessellation, and creating polygonal models. Software Library, Geometry Processing, Computer Graphics Computer & Information Sciences Programming Library Documentation, Uses, and more
libglvnd ACES libglvnd is the open-source implementation of the vendor-neutral dispatch layer for arbitrating OpenGL API calls between multiple vendors' graphics drivers and the X server. Graphics, Opengl, Vendor-Neutral Dispatch Computer & Information Sciences Graphics Library Documentation, Uses, and more
libgpg-error ACES
KyRIC		 Libgpg-error is a small library that defines common error values for all GnuPG components. It is used by GnuPG and some other packages. Error Handling, Library, Gnupg Computer & Information Sciences Utility Documentation, Uses, and more
libgpuarray ACES libgpuarray is a library that provides a common, numpy-like array object to represent GPU data for array-oriented algorithms in Python. It is designed to work with various libraries whose primary focus is on GPU acceleration, such as Theano or PyCUDA. Gpu Acceleration, Array-Oriented Algorithms, Python Library Computer & Information Sciences Computational Software Documentation, Uses, and more
libheif ACES Documentation, Uses, and more
libice Delta libice is a library that provides support for Inter-Client Exchange (ICE) in the X Window System, allowing X clients to securely exchange data through the X server. Library, Inter-Client Exchange, X Window System Computer & Information Sciences Communication Documentation, Uses, and more
libiconv ACES
Anvil
KyRIC		 libiconv is a library that provides character set conversion support. It converts text data between different character encoding schemes. Character Set Conversion, Text Data, Encoding Other Computer & Information Sciences, Computer & Information Sciences Conversion Tool Documentation, Uses, and more
libidn ACES Libidn is an internationalized domain name library designed to help with the process of converting internationalized domain names to/from ASCII representation. It implements the Stringprep, Punycode and IDNA specifications defined by the IETF (Internet Engineering Task Force). Software Library, Internationalization, Domain Names Computer & Information Sciences Dynamic Link Library (Dll) Documentation, Uses, and more
libidn2 ACES
DeltaAI
KyRIC		 Libidn2 is a library that implements the Stringprep, Punycode and IDNA specifications defined by the IETF Internationalized Domain Names (IDN) working group. Domain Names, Idns, Stringprep, Punycode Computer & Information Sciences Utility Documentation, Uses, and more
libint ACES libint is a library for the evaluation of molecular integrals needed in computational chemistry and related fields. It provides efficient and accurate implementations for various types of integrals used in quantum chemistry calculations. Computational Chemistry, Molecular Integrals, Quantum Chemistry Physical Chemistry, Chemical Sciences Computational Documentation, Uses, and more
libjpeg Delta libjpeg is a widely-used open-source library for reading and writing images in JPEG format. It provides functions for compression and decompression of JPEG images, making it a valuable tool for handling image files in various applications. Image Processing, Compression, Library Computer & Information Sciences Image Processing Documentation, Uses, and more
libjpeg-turbo ACES
Delta
DeltaAI		 libjpeg-turbo is a high-speed version of the widely-used JPEG image compression library. It uses SIMD instructions to accelerate JPEG compression and decompression on x86, x86-64, and ARM processors. Image Compression, Jpeg Compression, Library, Open Source Computer & Information Sciences Compression Library Documentation, Uses, and more
libmad ACES Documentation, Uses, and more
libmd Anvil
Delta
DeltaAI		 libmd is a library for molecular dynamics simulations that allows for the integration of equations of motion for particles interacting with different potentials. Molecular Dynamics, Simulation, Library Physical Sciences Computational Documentation, Uses, and more
libmesh Anvil
Stampede3		 Libmesh is a C++ finite element library designed to provide a framework for the numerical simulation of partial differential equations in high dimensions. It supports 1D, 2D, and 3D mesh generation, provides a wide range of finite element types, and includes solvers for various types of PDEs. Finite Element Library, Numerical Simulation, Partial Differential Equations Other Mathematics Library Documentation, Uses, and more
libnl Delta Documentation, Uses, and more
libnotify Ookami libnotify is a library that provides a way to display desktop notifications to users. It is typically used by desktop environments such as GNOME to show notifications for various events and applications. Notifications, Desktop, Library Other Computer & Information Sciences System Software Documentation, Uses, and more
libnsl ACES
Delta		 The libnsl library provides an interface for applications to make use of the services provided by the Network Services Layer (NSL). It offers functions that allow applications to communicate over the network using a variety of protocols. Network Services, Communication, Protocols Computer & Information Sciences System Software Documentation, Uses, and more
libogg ACES Libogg is a reference implementation of the Ogg bitstream format. It provides a simple, low-level API for working with Ogg bitstreams. Library, Bitstream, Audio Computer & Information Sciences Data Format Documentation, Uses, and more
libopus ACES libopus is a high-quality audio codec that is specifically designed for interactive speech and audio transmission over the Internet. It is part of the wider Opus audio codec family, covering a wide range of bitrates and applications. Audio Codec, Real-Time Communication, Internet Transmission Engineering & Technology Documentation, Uses, and more
libpals Delta Libpals is a collection of tools for analyzing and manipulating phylogenetic trees. It provides functionalities for tree comparison, consensus tree construction, tree visualization, and more. Phylogenetics, Bioinformatics, Computational Biology Systematics & Population Biology, Biological Sciences Library Documentation, Uses, and more
libpciaccess ACES
KyRIC		 libpciaccess is a library providing generic access to the PCI bus and devices for use in user-space programs. It allows user-space drivers to directly map PCI memory regions, perform bus transactions, and query devices on the PCI bus. Library, Pci Bus Access, User-Space Drivers Computer & Information Sciences Programming Library Documentation, Uses, and more
libpng ACES
Anvil
Delta
DeltaAI
Ookami		 Libpng is the official PNG reference library, used to support the PNG (Portable Network Graphics) format for storing raster images. It provides a set of functions for creating, reading, and manipulating PNG image files. Image Processing, Graphics Library, Raster Images Computer & Information Sciences Data Handling Documentation, Uses, and more
libpressio ACES Documentation, Uses, and more
libpsl ACES Libpsl is a C library that provides functions to work with the Public Suffix List (PSL), which is a database of domain suffixes (like .com, .co.uk, etc.) that are under public registry control. C Library, Domain Management, Public Suffix List Computer & Information Sciences System/Library Software Documentation, Uses, and more
libpthread-stubs Anvil
DeltaAI		 Documentation, Uses, and more
libreadline ACES libreadline is a GNU library that provides line-editing capabilities for interactive programs with a command-line interface. It allows users to edit text as they type commands, providing features such as history, editing, and completion of input. Command-Line Interface, Text Editing, Gnu Library, Interactive Programs Computer & Information Sciences Utility Documentation, Uses, and more
librom ACES LibROM is a library for Reduced Order Models (ROMs) that provides tools for model reduction of complex systems in engineering and computational science applications. It offers a range of algorithms and methods to reduce the computational cost of high-fidelity simulations. Software Library, Model Reduction, Computational Science Engineering & Technology Model Reduction Tool Documentation, Uses, and more
librosa ACES Documentation, Uses, and more
librsvg ACES Librsvg is a free software library to render SVG files and convert them to other formats using the Cairo rendering engine. Software Library, Free Software, Svg Rendering, File Conversion Computer & Information Sciences Rendering & Conversion Documentation, Uses, and more
librttopo ACES librttopo is a tool for computational topology focusing on persistent homology and topological data analysis. Computational Topology, Persistent Homology, Topological Data Analysis Mathematics Computational Software Documentation, Uses, and more
libsci Delta
DeltaAI		 libsci is a library of optimized scientific routines for high-performance computing (HPC) environments. It provides a collection of mathematical functions and computational kernels tailored for scientific and engineering applications that require high computational efficiency. Hpc, Scientific Computing, Optimization Other Mathematics Mathematics/Computational Software Documentation, Uses, and more
libsci_acc DeltaAI Documentation, Uses, and more
libseccomp ACES
KyRIC		 Libseccomp is an open-source library that provides an easy-to-use, platform-independent interface for working with the Linux Kernel's syscall filtering mechanism. It allows developers to filter system calls made by an application, restricting the actions the application can perform at the kernel level. Syscall Filtering, Linux Kernel, Security Computer & Information Sciences Development Documentation, Uses, and more
libsharp2 ACES Documentation, Uses, and more
libsigsegv KyRIC libsigsegv is a library for handling page faults in user mode. It provides a convenient and efficient way to establish a handler for memory violations while exploring memory areas. Library, Memory, Page Fault Computer & Information Sciences Utility Documentation, Uses, and more
libsm Delta Libsm is a library that provides a set of common utilities for scientific computing in C++. Library, Scientific Computing, C++ Other Natural Sciences Library Documentation, Uses, and more
libsndfile ACES
Delta		 libsndfile is a C library for reading and writing files containing sampled sound (such as WAV, AIFF, and AU) through one standard interface. Audio Processing, File Input/Output, C Library, Audio File Formats Other Natural Sciences Audio Processing Documentation, Uses, and more
libsodium ACES libsodium is a modern, easy-to-use software library for encryption, decryption, signatures, password hashing, and more. It is a portable, cross-compilable, installable, packageable fork of NaCl, a highly respected cryptographic library developed by Daniel J. Bernstein. Cryptography, Security, Encryption, Password Hashing Computer & Information Sciences Cryptography Documentation, Uses, and more
libsoup ACES libsoup is an HTTP client/server library for GNOME. It uses GObjects and the glib main loop, to integrate well with GNOME applications. Features include asynchronous I/O using GMainContext and WebSockets support. Http, Client/Server, Gnome, Gobjects, Asynchronous I/O, Websockets Computer Science, Computer & Information Sciences Http Client/Server Library Documentation, Uses, and more
libspatialindex ACES Libspatialindex is an open-source library for spatial indexing methods, designed to provide various spatial index structures which can be used for spatial queries in databases or applications. Spatial Index, Library, Open-Source Computer Science, Computer & Information Sciences Data Processing/Management Documentation, Uses, and more
libspatialite ACES libspatialite is an open-source library that extends the core SQLite database engine with spatial SQL capabilities. It allows users to create, manage, and query spatial data in a SQLite database, providing support for spatial functions and geometric data types. Spatialite, Geospatial, Database, Spatial Data Computer & Information Sciences Database Management Documentation, Uses, and more
libstdcompat ACES Documentation, Uses, and more
libszip Anvil libszip is a compression library for large datasets used in scientific computing and research. It provides support for efficient and high-speed compression and decompression of large data files, particularly in formats commonly used in scientific applications. Compression Library, Scientific Computing, Data Compression, Research Tools Other Natural Sciences Compression Documentation, Uses, and more
libtasn1 ACES libtasn1 is a library developed for ASN.1 and DER manipulation. ASN.1 is a standard interface description language for defining data structures that can be serialized and deserialized in a cross-platform way. Library, Asn.1, Der, Serialization, Deserialization Computer Science, Computer & Information Sciences Development Library Documentation, Uses, and more
libtiff ACES
Anvil
DeltaAI		 libtiff is a library for reading and writing TIFF (Tagged Image File Format) files. It provides support for handling images and documents in various uncompressed and compressed formats. Image Processing, File Format, Library, Tiff, Image Storage Computer & Information Sciences Image Processing Documentation, Uses, and more
libtirpc ACES
Anvil
Delta
Expanse		 libtirpc is an open-source library that provides an implementation of Sun's Transport-Independent RPC (TI-RPC) protocol. Software Library Computer & Information Sciences Development Documentation, Uses, and more
libtool ACES
DeltaAI
KyRIC		 Libtool is a generic library support script that manages the creation of static and dynamic libraries on various Unix-like operating systems. Library Management, Software Development, Compilation Engineering & Technology Utility/Tool Documentation, Uses, and more
libunistring ACES
DeltaAI
KyRIC		 libunistring is a C library that provides functions to manipulate Unicode strings and includes functions for encoding conversion, case mapping, normalization, and more. Unicode, Encoding, String Manipulation, Localization Computer & Information Sciences Computational Software Documentation, Uses, and more
libunwind ACES
Delta
DeltaAI
Ookami		 libunwind is a portable and efficient C programming interface (API) to determine the call-chain of a program. It is primarily used for debugging, performance profiling, and runtime instrumentation. Debugging, Profiling, Runtime Instrumentation, Call Stack, C Programming Engineering & Technology Development Documentation, Uses, and more
libv8 Anvil libv8 is an open-source C++ library that provides a fast and efficient JavaScript engine for embedding in various applications and tools. Javascript Engine, C++ Library Computer & Information Sciences Programming Library Documentation, Uses, and more
libvdwxc ACES Documentation, Uses, and more
libvorbis ACES Libvorbis is a free and open-source software library for encoding and decoding audio data compressed with the Vorbis audio codec. It is part of the Xiph.org Foundation's Ogg project and is used for high-quality audio compression. Audio Codec, Compression, Open-Source Engineering & Technology Audio Processing Documentation, Uses, and more
libvori ACES libvori is a library for calculating voronoi diagrams. It provides functions for generating voronoi diagrams from a set of points in the plane. Voronoi Diagrams, Computational Geometry, Library Other Mathematics, Mathematics Calculation Tool Documentation, Uses, and more
libwebp ACES libwebp is a library for working with the WebP image format. It provides tools to encode, decode, and manipulate images in the WebP format, which is a modern image format that provides both lossy and lossless compression for images on the web. Image Processing, Compression, Web Development, Library Other Computer & Information Sciences Image Processing Documentation, Uses, and more
libwpe ACES libwpe is a library that provides web platform support for Wayland compositors and other clients that need web content rendered on a Wayland surface. Library, Web Platform Support, Wayland Compositors, Web Content Rendering Computer & Information Sciences Library Documentation, Uses, and more
libx11 Anvil
Delta
DeltaAI		 libX11 is the X Window System protocol client library which provides an interface to the X Window System core protocol and provides higher-level functions for building window systems on top of the X Window System core. X Window System, Client Library, Window System Interface, Graphics Computer & Information Sciences, Computer Science Software Development Documentation, Uses, and more
libx265 Delta Documentation, Uses, and more
libxau Anvil
Delta
DeltaAI		 libXau is a library that provides authentication data for Xlib-based client programs. Library, Authentication, Xlib Computer & Information Sciences Documentation, Uses, and more
libxaw Delta Documentation, Uses, and more
libxc ACES
Ookami
Stampede3		 LibXC is a library of exchange-correlation functionals for density-functional theory. Quantum Mechanics, Computational Chemistry Chemical Sciences Density Functional Theory Documentation, Uses, and more
libxcb Anvil
Delta
DeltaAI		 libxcb is a C language library for the X Window System's X protocol, providing a replacement for the traditional Xlib API. It allows for more efficient communication between X clients and the X server by reducing round-trip requests. X Window System, C Library, X Protocol Computer Science, Computer & Information Sciences Programming Documentation, Uses, and more
libxcrypt DeltaAI Documentation, Uses, and more
libxdmcp Anvil
Delta
DeltaAI		 libxdmcp is the X Display Manager Control Protocol library. It provides an API for the X Display Manager Control Protocol (XDMCP) for both the client and server side. X11, Display Manager, Network Protocol Computer & Information Sciences Networking Documentation, Uses, and more
libxext Anvil Documentation, Uses, and more
libxfont DeltaAI Documentation, Uses, and more
libxml2 ACES
Anvil
DeltaAI
KyRIC		 Libxml2 is a software library for parsing, validating, and manipulating XML and HTML documents. It provides a tree-based API for working with XML data and supports various standards such as XML 1.0, XPath, XInclude, XPointer, and XML Catalogs. Xml, Html, Parsing, Validation, Manipulation Computer & Information Sciences Parsing Documentation, Uses, and more
libxp Delta
DeltaAI		 Documentation, Uses, and more
libxpm DeltaAI Documentation, Uses, and more
libxrender Anvil Documentation, Uses, and more
libxscrnsaver Anvil libxscrnsaver is a library that provides an X Window System client interface to the X11 MIT-SCREEN-SAVER extension. It allows applications to inhibit the screensaver and screen blanking in a standardized way. Library, X Window System, Screensaver, Screen Blanking Computer & Information Sciences System Library Documentation, Uses, and more
libxslt ACES
Anvil		 Libxslt is the XSLT C library developed for the GNOME project. It is used for transforming XML documents into other formats using XSLT stylesheets. Libxslt is based on libxml2, the XML C parser and toolkit. Xml, Xslt, C Library, Transformation Computer & Information Sciences Data Processing Documentation, Uses, and more
libxsmm ACES libxsmm is a library for small, dense matrix-matrix multiplications developed for modern CPUs. It provides high performance on Intel Architecture CPUs and comes with different optimized code paths tailored for different processor microarchitectures. Library, Matrix Multiplication, Intel Cpus Computer & Information Sciences Optimization Library Documentation, Uses, and more
libxt Delta Libxt is a library offering extensions for automating compilation, dependency tracking, and execution of computational tasks within HPC environments. Library, Hpc, Automation, Compilation, Dependency Tracking, Parallel Processing Engineering & Technology Library Documentation, Uses, and more
libyaml ACES LibYAML is a YAML 1.1 parser and emitter written in C. It is a library for parsing and emitting YAML data. YAML is a human-readable data serialization format that is commonly used for configuration files and data exchange between languages. LibYAML allows developers to integrate YAML support into their applications. Yaml, Parser, Emitter, Serialization, Configuration Computer & Information Sciences, Engineering & Technology Parsing/Serialization Documentation, Uses, and more
libzip ACES libzip is a C library for reading, creating, and modifying zip archives. It provides a simple programming interface for managing zip files. C Library, Zip Archives, File Management Computer & Information Sciences Compression Documentation, Uses, and more
lifelines ACES Lifelines is a Python library for survival analysis, reliability, and lifetime data analysis. It provides tools for data preprocessing, estimating survival functions, hazard rates, and confidence intervals, as well as modeling, predicting, and visualizing survival data. Python Library, Survival Analysis, Lifetime Data Analysis, Reliability Analysis, Data Visualization Statistics & Probability Python Library Documentation, Uses, and more
likwid KyRIC
Ookami		 LIKWID is a performance analysis tool suite designed to support HPC/PCP (performance counter profiling) on Intel and AMD processors. It offers a set of command-line tools and libraries that facilitate the collection of performance data and analysis on modern hardware architectures. Performance Analysis, Hpc, Performance Counter Profiling, Hardware Performance Counters Performance Evaluation & Benchmarking, Engineering & Technology Tool Documentation, Uses, and more
linaro Ookami Linaro is a collaborative engineering organization that works on consolidating and optimizing open-source software for the Arm architecture, including the Linux kernel, toolchain, and graphics stack. Collaborative Engineering, Arm Architecture, Open-Source Software Optimization Computer Information Sciences Development & Optimization Tools Documentation, Uses, and more
lit ACES Documentation, Uses, and more
littlecms ACES LittleCMS is a color management engine that provides simplified and portable fundamentals for the development and integration of color management components into various software applications. Color Management, Software Development, Image Processing Computer & Information Sciences Library Documentation, Uses, and more
lldb Ookami LLDB is a powerful and modern debugger for C, C++, and Objective-C languages. It is part of the LLVM project and mainly used for debugging programs on macOS and iOS. Debugger, Llvm, C/C++, Objective-C Computer Science, Computer & Information Sciences Debugger Documentation, Uses, and more
llvm ACES
Delta
Ookami		 The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. LLVM is used for developing compiler back-ends, static analysis tools, and JIT compilation engines. Compiler, Toolchain Computer & Information Sciences Compiler Documentation, Uses, and more
lmdb ACES LMDB is an extremely fast, memory-efficient and crash-proof key-value store that is well-suited for embedded applications and high-performance web services. It is written in C and operates directly on memory-mapped files. Database, Key-Value Store, Memory-Mapped Files Computer & Information Sciences Database Management System Documentation, Uses, and more
lmod ACES
Bridges-2
Delta
DeltaAI
Stampede3		 Lmod is an environment module system that helps users manage their software environment by providing a convenient way to dynamically modify the user's environment through modulefiles. It supports multiple collections of modules that can be easily swapped in and out, allowing users to load the software packages and versions they need for their work. Module Management, Software Environment, Environment Module System Infrastructure & Instrumentation, Engineering & Technology Utility Documentation, Uses, and more
lowcharts Bridges-2 Lowcharts is a Python library for creating basic low-level charts with a simplistic and minimalistic interface. It aims to provide users with an easy-to-use tool for generating simple line charts, bar charts, and scatter plots. Python Library, Data Visualization, Charting Library Computer & Information Sciences Library Documentation, Uses, and more
lpsolve ACES Documentation, Uses, and more
lua ACES
Expanse
Ookami		 Lua is a lightweight, high-level, multi-paradigm programming language designed for embedded use in applications. It is known for its simplicity, efficiency, and flexibility. Programming Language, Scripting Language, Embedded Systems Computer & Information Sciences Documentation, Uses, and more
luajit Expanse
Ookami		 Documentation, Uses, and more
lvm2 KyRIC Logical Volume Manager 2 (LVM2) is a system tool for managing logical volumes. It is typically used to manage disk storage space in a more flexible manner than traditional partitioning. System Tool, Storage Management, Disk Management Engineering & Technology Utility Documentation, Uses, and more
lxml ACES lxml is a powerful and feature-rich library for processing XML and HTML in Python. It provides a simple and pythonic API for efficient handling of XML and HTML data. Python Library, Xml Processing, Html Processing, Data Parsing Computer & Information Sciences, Other Computer & Information Sciences Data Processing Documentation, Uses, and more
lz4 ACES
Ookami		 LZ4 is a lossless data compression algorithm that offers extremely fast compression and decompression speeds. It is designed to be very efficient in terms of both processing power and memory usage. Compression, Data Compression, Lossless Compression Computer & Information Sciences Utility Documentation, Uses, and more
lzma Delta LZMA is a high-compression data compression software program that employs the Lempel-Ziv-Markov chain algorithm (LZMA). It provides lossless data compression and decompression algorithms. Compression, Data Compression, Algorithm Computer & Information Sciences Tool Documentation, Uses, and more
lzo ACES Lempel-Ziv-Oberhumer (LZO) is a data compression algorithm that focuses on high-speed compression and decompression. It offers fast compression and decompression speeds with moderate compression ratios. LZO is commonly used in applications where speed is more critical than achieving the highest compression ratios. Data Compression, Algorithm, High-Speed Computer & Information Sciences Data Processing Documentation, Uses, and more
m4 ACES
DeltaAI
KyRIC		 m4 is a general-purpose macro processor designed to be used with any programming language or data file format. It is commonly used to generate source code or text files and is often used as part of the build process for software development. Macro Processor, Text Processing, Software Development, Build Process Computer & Information Sciences Compiler Documentation, Uses, and more
maeparser ACES maeparser is a Python library for reading and writing molecular data stored in Maestro files. It provides a simple interface for extracting structural information from Maestro files commonly used in molecular modeling and computational chemistry. Python Library, Molecular Data, Maestro Files Chemical Sciences Library Documentation, Uses, and more
mafft ACES MAFFT is a multiple sequence alignment program for amino acid or nucleotide sequences. It offers a range of algorithms and options for improving alignment quality. Bioinformatics, Sequence Alignment, Phylogenetics Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
magics ACES Magics is a software library for visualizing meteorological data. It provides a wide range of graphical elements for the simultaneous representation of 2D and 3D data, including maps, wind fields, trajectories, symbols, etc. Magics is commonly used in weather forecasting, climate research, and meteorological data analysis. Visualization, Meteorology, Meteorological Data, Weather Forecasting Atmospheric Sciences, Earth & Environmental Sciences Library Documentation, Uses, and more
magma ACES
Delta		 Magma is a software package designed for computations in algebra, number theory, algebraic geometry, and algebraic combinatorics. It provides a powerful tool for mathematical research and applications. Mathematics, Algebra, Number Theory, Combinatorics Algebra & Number Theory, Mathematics Mathematical Software Documentation, Uses, and more
make ACES
KyRIC		 Make is a build automation tool that automatically builds executable programs and libraries from source code by reading files called Makefiles which specifies how to derive the target program. Build Automation, Software Development, Programming Engineering & Technology Utility Documentation, Uses, and more
makedepend ACES makedepend is a tool used in software development to automatically generate dependencies of C source files. It is commonly used in projects utilizing makefiles to track dependencies and streamline the build process. Software Development, Build Automation, Dependency Management Software Engineering, Systems & Development, Engineering & Technology Utility Documentation, Uses, and more
makeinfo ACES makeinfo is a program that formats and prints Texinfo documentation. Texinfo is a typesetting syntax used for generating documentation in a variety of output formats such as HTML, DVI, PDF, PostScript, and plain text. Documentation, Formatting, Texinfo, Build Systems Other Computer & Information Sciences Text Processing Documentation, Uses, and more
mako ACES Mako is a template library written in Python. It provides a familiar, non-XML syntax that compiles into Python modules for maximum performance. Template Library, Python, Web Development Computer & Information Sciences Programming Documentation, Uses, and more
mamba ACES Mamba is a reimplementation of the high-performance package manager Conda that aims to be much faster in resolving package dependencies. It provides a simple and fast way to manage environments and packages for conda-enabled systems. Package Manager, Dependency Resolver, Environment Management Engineering & Technology Package Manager Documentation, Uses, and more
map Stampede3 Map is a software tool used for creating, visualizing, and analyzing geographical maps. It is commonly used in cartography and geographic information systems (GIS). Mapping Software, Geographical Analysis, Cartography Other Natural Sciences Geospatial Software Documentation, Uses, and more
margo ACES Documentation, Uses, and more
mariadb ACES MariaDB is a popular open source relational database management system (RDBMS) that is a drop-in replacement for MySQL. It is known for its high performance, scalability, and robust SQL support. MariaDB is developed by the original creators of MySQL and is designed for enterprise environments, web applications, and mission-critical systems. Database Management System, Rdbms, Open Source, Sql Computer & Information Sciences Application Software Documentation, Uses, and more
mash ACES Mash is a fast and flexible genome distance estimator that can accurately estimate the pairwise genetic distance between genomes. It uses a MinHash dimensionality reduction technique to efficiently compute Jaccard distances between large sets of DNA sequences, enabling rapid genome comparisons. Genome Distance Estimator, Minhash Technique, Jaccard Distances, DNA Sequences, Genome Comparisons Biological Sciences Documentation, Uses, and more
mathematica Stampede3 Mathematica is a computational software program used in scientific, engineering, mathematical and computing fields. It provides a wide range of tools for symbolic and numerical computations, visualization, data analysis, and programming. Computational Software, Mathematics, Data Analysis, Programming, Visualization Applied Mathematics, Mathematics Mathematical Software Documentation, Uses, and more
matio ACES matio is a library for reading and writing MATLAB MAT files in C and Fortran. The library supports reading and writing Level 5 MAT files and supports most of the features of MAT 4 and MAT 5 MAT files. Matlab Mat Files, C, Fortran Other Mathematics, Mathematics Data Management Documentation, Uses, and more
matlab ACES
Anvil
Bridges-2
Expanse
Jetstream2
Ookami
Stampede3		 MATLAB is a high-performance language for technical computing and visualization. It integrates computation, visualization, and programming in an easy-to-use environment where problems and solutions are expressed in familiar mathematical notation. Programming Language, Technical Computing, Visualization, Mathematical Notation Applied Mathematics, Mathematics Computational Software Documentation, Uses, and more
matlab_unlicensed Delta Documentation, Uses, and more
matplotlib ACES Matplotlib is a comprehensive library for creating static, animated, and interactive visualizations in Python. It can be used to generate plots, histograms, power spectra, bar charts, error charts, scatterplots, etc. Matplotlib is highly customizable and offers a wide range of plotting options and styles. Python Library, Data Visualization, Plotting Library Computer & Information Sciences Plotting & Graphing Tool Documentation, Uses, and more
maturin ACES Maturin is a Rust-native build system for Python packages that allows users to create wheels for their Python packages written in Rust. It aims to simplify the process of packaging and distributing Python extensions written in Rust, providing a seamless integration between Rust and Python ecosystems. Python Packaging, Rust Programming Language, Build System, Python Extensions, Package Distribution Computer & Information Sciences Build System Documentation, Uses, and more
maven ACES Apache Maven is a build automation tool used primarily for Java projects. It manages project dependencies and provides a standardized way to build, test, and deploy Java software projects. Build Automation, Dependency Management, Java Projects Computer & Information Sciences Development Tool Documentation, Uses, and more
mayavi ACES Documentation, Uses, and more
mc Bridges-2 MC is a popular C compiler and interpreter that is widely used for developing efficient and portable software. Compiler, Interpreter, C, Software Development Computer & Information Sciences Compiler Documentation, Uses, and more
mdi ACES Documentation, Uses, and more
mdspan Stampede3 mdspan is a C++ library that provides a multidimensional array data structure with a fixed size at compile time. It offers a high-performance alternative to traditional dynamically allocated multidimensional arrays. C++ Library, Multidimensional Array, Data Structure, High-Performance Computing Computer & Information Sciences Data Structure Documentation, Uses, and more
mdtest Delta MDTest is a file system metadata benchmark that includes tests to measure metadata operations, such as file creates, stat operations, and directory operations. It is often used to assess the metadata performance of parallel file systems. Benchmarking, File System, Metadata Computer & Information Sciences Tool Documentation, Uses, and more
mdtraj ACES Documentation, Uses, and more
meep Anvil Meep (or MIT Electromagnetic Equation Propagation) is a free finite-difference time-domain (FDTD) simulation software package developed at MIT to model electromagnetic systems. Simulation, Electromagnetics, Fdtd Physical Sciences Computational Software Documentation, Uses, and more
meme suite Bridges-2 Documentation, Uses, and more
memoryviewer ACES MemoryViewer is a software tool used for analyzing and visualizing memory usage and data structures within computer programs. It allows users to track memory allocation, deallocation, and usage patterns to optimize memory management. Memory Management, Software Development, Performance Analysis Computer & Information Sciences Development Tool Documentation, Uses, and more
mentorgraphics Bridges-2 The MentorGraphics/tessent.2022.1 modulefile provides Mentor Graphics Tessent 2022.1. Design augmentation and linked applications that detect, mitigate and eliminate risks throughout the IC lifecycle, helping customers address their debug, test, yield, safety, security, and optimization requirements for today’s most complex SoCs. Documentation, Uses, and more
mercurial ACES
Ookami		 Mercurial is a free, distributed source control management tool. It efficiently handles projects of any size and offers an intuitive interface. Version Control, Software Development Computer & Information Sciences Development Tools Documentation, Uses, and more
mercury ACES Documentation, Uses, and more
mesa ACES Mesa is an open-source agent-based modeling framework that allows users to create and analyze computational models of complex adaptive systems. Agent-Based Modeling, Complex Systems, Simulation, Computational Modeling Other Computer & Information Sciences, Computer & Information Sciences Framework Documentation, Uses, and more
mesa-glu Anvil mesa-gl is an open-source implementation of the OpenGL specification, a system for rendering interactive 3D graphics, and a widely used and versatile graphics library. mesa-glu is the OpenGL Utility Library (GLU) component of Mesa, providing useful functions for building OpenGL applications. Graphics, 3D Graphics, Opengl, Graphics Library Computer & Information Sciences Library Documentation, Uses, and more
meson ACES
Delta
DeltaAI		 Meson is an open-source build system meant to be both extremely fast and as user-friendly as possible. Build System, Software Development, Automation Computer & Information Sciences Compiler Documentation, Uses, and more
meson-python ACES Meson is a high-productivity build system. It provides a simple syntax for describing how your project is build and a wide range of options to control the build process. Build System, Automation, Software Development Computer & Information Sciences Build System Documentation, Uses, and more
metaeuk ACES Documentation, Uses, and more
metagenomics Ookami Documentation, Uses, and more
metaphlan ACES MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data. It relies on unique clade-specific marker genes to identify and quantify the presence of microbial species in a sample. Metagenomics, Microbiome, Microbial Ecology, Bioinformatics Environmental Biology, Biological Sciences Tool Documentation, Uses, and more
methscan ACES Documentation, Uses, and more
methylpy Bridges-2 methylpy is a Python package designed for the analysis of DNA methylation data obtained from bisulfite sequencing. It provides various tools for processing, analyzing, visualizing, and interpreting DNA methylation data. DNA Methylation, Bisulfite Sequencing, Epigenetics, Bioinformatics, Python Package Genetics, Biological Sciences Python Library Documentation, Uses, and more
metis ACES
Delta
Stampede3		 Metis is a computational software library for partitioning graphs, meshes, and hypergraphs. It provides algorithms that can efficiently partition large graphs and meshes while minimizing the edge-cuts and balancing the partition sizes. Computational Software, Graph Partitioning, Mesh Partitioning, Hypergraph Partitioning Computer & Information Sciences Tool Documentation, Uses, and more
mfem ACES
Stampede3		 MFEM is a lightweight, general, scalable C++ library for finite element methods. Its features include a wide range of finite element spaces, high-order and variable-order discretizations, parallel computing support, and multiple examples and applications. Finite Element Method, C++ Library, Parallel Computing Engineering & Technology Library Documentation, Uses, and more
mgard ACES Documentation, Uses, and more
micromamba ACES Documentation, Uses, and more
minialign Bridges-2 minialign is an ultrafast, memory efficient, and highly accurate tool for multiple sequence alignment (MSA) of biological sequences. It is designed to handle very large datasets with high throughput. The software employs a k-mer based approach for rapid pairwise alignment followed by progressive alignment to generate the final MSA. Bioinformatics, Hpc Tools Bioinformatics, Biological Sciences Tool Documentation, Uses, and more
miniconda cuquantum DeltaAI Documentation, Uses, and more
miniconda3 ACES
KyRIC		 Miniconda is a free minimal installer for conda. It is a package management system that simplifies the installation and management of software packages. Miniconda allows users to create environments containing dependencies from a specified list of packages, making it easier to manage different projects with conflicting package requirements. Package Management, Dependency Management, Software Installation Computer & Information Sciences Package Manager Documentation, Uses, and more
miniforge3 ACES Documentation, Uses, and more
miniforge3_datascience DeltaAI Documentation, Uses, and more
miniforge3_pytorch Delta
DeltaAI		 Documentation, Uses, and more
miniforge3_tensorflow_cpu DeltaAI Documentation, Uses, and more
miniforge3_tensorflow_cuda DeltaAI Documentation, Uses, and more
minimap2 ACES Minimap2 is a versatile sequence alignment program that can be used for mapping DNA or cDNA sequences to a reference genome. It is known for its speed and accuracy, making it a popular choice for various bioinformatics applications. Sequence Alignment, Bioinformatics, Genomics, Computational Biology Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
minizip ACES Minizip is a minimalistic, open-source library that provides a simple API to create, read, and update zip files. It is a lightweight solution for working with zip archives in C or C++ projects. Compression, Archiving, Library, Open Source Compression/Archiving Documentation, Uses, and more
minpath ACES Documentation, Uses, and more
mkfontdir DeltaAI Documentation, Uses, and more
mkfontscale DeltaAI Documentation, Uses, and more
mkl KyRIC Intel Math Kernel Library (Intel MKL) is a highly optimized, thread-safe, mathematical library for performing mathematical, statistical, and data analysis computations. It offers high-performance implementations of BLAS, LAPACK, ScaLAPACK, sparse solvers, FFT, and more for Intel processors. Mathematical Library, Optimized Computations, Thread-Safe Functions Applied Mathematics, Mathematics Computational Software Documentation, Uses, and more
mkl32 KyRIC Intel(R) Math Kernel Library for 32-bit applications Mathematics, Computational Software, Hpc Tools Other Mathematics Library Documentation, Uses, and more
mkmod Stampede3 Documentation, Uses, and more
ml-collections ACES Documentation, Uses, and more
ml_dtypes ACES Documentation, Uses, and more
mlflow Bridges-2 MLflow is an open-source platform for managing the end-to-end machine learning lifecycle. It enables tracking experimentation, packaging code into reproducible runs, and sharing and deploying models. Machine Learning, Data Science, Model Management, Experimentation, Model Deployment Computer Science, Computer & Information Sciences Open-Source Documentation, Uses, and more
mmg ACES Documentation, Uses, and more
mmseqs2 ACES MMseqs2 is a software suite for fast and sensitive sequence searching. It enables ultra-fast and sensitive sequence search and clustering functionality using a versatile and memory-efficient index data structure. Sequence Searching, Sequence Clustering, Bioinformatics, Computational Biology Biological Sciences Sequence Search & Clustering Tool Documentation, Uses, and more
moab ACES Documentation, Uses, and more
modtree Anvil ModTree is a software tool for the reconstruction of modular trees of mRNA transcripts and alternative splicing events. It is designed to identify and visualize the modular organization of alternative splicing events within a transcriptome. Transcriptomics, Alternative Splicing, Modular Trees, Data Analysis Genetics, Biological Sciences Computational Software Documentation, Uses, and more
modular ACES Documentation, Uses, and more
module-git Expanse
Ookami		 module-git is a version control system designed to efficiently handle large projects, providing powerful branching, merging, and collaboration features. It allows multiple developers to work on the same codebase concurrently and maintain a complete history of changes. Version Control, Distributed Version Control, Collaboration, Software Development Documentation, Uses, and more
module-info Expanse
Ookami		 module-info is a software tool that provides information about loaded modules and their dependencies in a computing environment. It helps users to manage and troubleshoot software dependencies and configurations. Software, Dependency Management, Software Configuration Computer & Information Sciences System Information Tool Documentation, Uses, and more
mold ACES Mold is a computational software tool developed for conducting molecular dynamics simulations in the field of biophysics and computational chemistry. It is designed to model the behavior of biomolecules and study their interactions at the atomic level. Computational Software, Molecular Dynamics, Biophysics, Chemistry Biophysics, Biological Sciences Molecular Dynamics Simulator Documentation, Uses, and more
monai ACES MONAI (Medical Open Network for AI) is a PyTorch-based, open-source framework for healthcare imaging. It provides domain-optimized foundational capabilities for developing medical imaging deep learning algorithms. MONAI enables the reproducible and scalable research for the development of novel imaging technologies and clinical applications. Deep Learning, Medical Imaging, Pytorch, Open Source Biomedical Engineering, Engineering & Technology Research Documentation, Uses, and more
monitor Anvil A monitor is an electronic visual display for computers. It usually consists of a screen, circuitry, and casing. The display device in modern monitors is typically a thin film transistor liquid crystal display (TFT-LCD) or a flat panel LED display, while older monitors used a cathode ray tube (CRT). Monitors are used to display output from the computer's graphics card, allowing users to interact with the computer and its software. Technology, Display, Computer Hardware Device Documentation, Uses, and more
motif ACES Motif is a software tool used for motif discovery and motif analysis in biological sequences. It is commonly employed in bioinformatics and computational biology to identify conserved patterns or motifs within nucleotide or protein sequences. Bioinformatics, Computational Biology, Sequence Analysis Biological Sciences Sequence Analysis Tool Documentation, Uses, and more
mpc ACES
Anvil
DeltaAI
KyRIC		 MPC, short for Multi-Party Computation, is a cryptographic protocol that allows multiple parties to jointly compute a function over their inputs while keeping those inputs private. It ensures data privacy and security in collaborative computations. Cryptographic Protocol, Secure Computation, Privacy-Preserving, Collaborative Computation Computer & Information Sciences Cryptographic Protocol Documentation, Uses, and more
mpfr ACES
Anvil
DeltaAI
Expanse
KyRIC
Stampede3		 The GNU MPFR (Multiple Precision Floating-Point Reliable) library is a C library for arbitrary-precision arithmetic on floating-point numbers that guarantees correctly rounded results. Arbitrary-Precision Arithmetic, Floating-Point Computation, Mathematical Library Mathematics Computational Software Documentation, Uses, and more
mpi KyRIC Message Passing Interface (MPI) is a standardized and portable message-passing system designed to enable scalable, parallel computing on a wide variety of parallel computers. It is widely used in the field of high-performance computing (HPC) to develop parallel programs that can run efficiently on distributed memory architectures. Hpc, Parallel Computing, Message Passing, Scalable Computing Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
mpi4py ACES
Ookami		 MPI for Python (mpi4py) provides bindings of the Message Passing Interface (MPI) standard for the Python programming language. It allows Python programs to directly interact with MPI parallel computation functionalities. Parallel Computing, Message Passing Interface, Python Library Computer & Information Sciences, Other Computer & Information Sciences Python Library Documentation, Uses, and more
mpich ACES
DeltaAI
KyRIC
Ookami		 MPICH is a high-performance and widely portable implementation of the Message Passing Interface (MPI) standard. It enables parallel computing on a wide variety of platforms and architectures. Mpi Implementation, Parallel Computing, High Performance Computing Computer & Information Sciences Library Documentation, Uses, and more
mpich-abi DeltaAI Documentation, Uses, and more
mpip Delta
DeltaAI		 mpip is a small utility that helps to install and manage MPI libraries on HPC clusters by simplifying the process of downloading, configuring, building, and installing MPI libraries. Software Utility, Hpc, Mpi Libraries, Cluster Management, Installation Tool Engineering & Technology Documentation, Uses, and more
mpixlate DeltaAI Documentation, Uses, and more
mpl Stampede3 Documentation, Uses, and more
mrbayes Anvil MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. It employs Markov chain Monte Carlo methods to estimate the posterior distribution of model parameters. Bayesian Inference, Phylogenetics, Evolutionary Biology Systematics & Population Biology, Biological Sciences Software Tool Documentation, Uses, and more
mrcfile ACES Documentation, Uses, and more
mrnet Delta
DeltaAI		 MRNET (Mendelian Randomization using Network models) is a software package for performing causal inference through Mendelian randomization and network modeling. It allows researchers to investigate causal relationships between traits by leveraging genetic instrumental variables and network structures. Causal Inference, Mendelian Randomization, Network Modeling, Genetic Instrumental Variables Genetics, Biological Sciences Research Tool Documentation, Uses, and more
mujoco ACES MuJoCo is a physics engine for detailed, efficient and accurate simulation of complex dynamical systems. It is designed for high-fidelity modeling and simulation of computational and robotic systems in various domains. Physics Engine, Simulation, Robotics Artificial Intelligence & Intelligent Systems, Engineering & Technology Physics Engine Documentation, Uses, and more
multichoose ACES multichoose is a Python library that implements the concept of multichoose, which calculates the number of ways to choose a certain number of items from a set where each item can be chosen multiple times. Python Library, Combinatorics, Mathematics Pure Mathematics, Mathematics Mathematical Calculation Tool Documentation, Uses, and more
multiqc ACES MultiQC is a reporting tool that collects statistics from multiple bioinformatics analyses and generates a single report. It helps in summarizing the output from various bioinformatics tools in a standardized and consolidated format. Bioinformatics, Computational Biology, Data Analysis, Reporting Tool Biophysics, Biological Sciences Visualization Tool Documentation, Uses, and more
mummer ACES MUMmer is a system for rapidly aligning entire genomes, whether in complete or draft form. It can also align a wide range of sequences, including protein-coding sequences. Genome Alignment, Sequence Alignment, Bioinformatics Biological Sciences Bioinformatics Documentation, Uses, and more
mumps ACES
Stampede3		 MUMPS (MUltifrontal Massively Parallel sparse direct Solver) is a software package for the parallel solution of large sparse systems of linear equations arising from computational science and engineering applications. Linear Algebra, Sparse Matrices, Computational Science, Engineering Applied Mathematics, Mathematics Solver Documentation, Uses, and more
muparser Delta muparser is a fast mathematical expression parser library written in C++. Mathematical Expression Parser, Math Library, C++ Library Other Mathematics Mathematical Expression Parser Documentation, Uses, and more
musl ACES musl is a lightweight, fast, simple, and secure C library that targets modern Unix systems. It is designed for embedded systems, performance-critical applications, and other resource-constrained environments where a small footprint is essential. C Library, Embedded Systems, Performance Optimization, Resource-Constrained Environments Computer & Information Sciences C Library Documentation, Uses, and more
must Bridges-2 MuST is software package designed for performing ab initio electornic structure calculations for metals, alloys, and nanostructures. It is an all-electron DFT code based on multiple scattering theory, also known as KKR method, and Green function techniques. Documentation, Uses, and more
mvapich Delta
Ookami
Stampede3		 MVAPICH (MPI for MVAPICH2) is an open-source MPI implementation that delivers high performance, scalability, and fault tolerance for parallel computing on large HPC systems. It is specifically designed for InfiniBand and Omni-Path architectures. Hpc, Mpi, Parallel Computing, High Performance Computing Engineering & Technology Parallel Computing Documentation, Uses, and more
mvapich-plus ACES Documentation, Uses, and more
mvapich-plus-cpu Stampede3 Documentation, Uses, and more
mvapich-plus-pvc Stampede3 Documentation, Uses, and more
mvapich2 Anvil
Bridges-2
KyRIC
Ookami		 MVAPICH2 is an open-source MPI implementation for InfiniBand, iWARP, and RoCE communication protocols which delivers high performance and scalability on a wide variety of HPC systems. Mpi Implementation, High Performance Computing, Infiniband, Open-Source Physical Sciences Library/Tool Documentation, Uses, and more
mvapich2-gdr ACES MVAPICH2-GDR is a high-performance MPI library designed for NVIDIA GPU Direct RDMA technology, allowing direct data transfers between GPUs and networking adapters without involving the CPU. It is optimized for HPC clusters and large-scale computing environments to achieve low latency and high message rate communication. Hpc, Mpi Library, Gpu Direct Rdma, High-Performance Computing Engineering & Technology Library Documentation, Uses, and more
mygene ACES Documentation, Uses, and more
namd ACES
Anvil
Bridges-2
Delta
Ookami
Stampede3		 NAMD (NAnoscale Molecular Dynamics) is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. It is optimized for the simulation of biomolecular systems containing millions of atoms. Molecular Dynamics, Biomolecular Systems, Parallel Computing, Cuda, Simulation Biophysics, Biological Sciences Computational Software Documentation, Uses, and more
namd-linux-x86_64-multicore KyRIC Documentation, Uses, and more
namd-multicore-cuda ACES A parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. Documentation, Uses, and more
namd-netlrts-smp-cuda ACES NAMD (NAnoscale Molecular Dynamics) is a high-performance molecular dynamics software that simulates large biomolecular systems. This version of NAMD is customized for parallel computing on multicore machines with CUDA support for GPU acceleration. Molecular Dynamics, Simulation, Biomolecular Systems, Parallel Computing, Cuda, Gpu Acceleration Bioinformatics, Biological Sciences Scientific Software Documentation, Uses, and more
namd-verbs-smp-cuda ACES A parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. Documentation, Uses, and more
namd3 Delta NAMD3 is a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems. It is capable of running on a wide range of hardware platforms, from individual workstations to large HPC clusters, making it suitable for a variety of research applications in biophysics and computational biology. Molecular Dynamics, Biomolecular Systems, Computational Biology, Hpc, Parallel Computing Biophysics, Biological Sciences Scientific Simulation Software Documentation, Uses, and more
nano ACES
DeltaAI		 Documentation, Uses, and more
nanoget ACES Documentation, Uses, and more
nanomath ACES Documentation, Uses, and more
nanoplot Bridges-2 NanoPlot is a plotting tool specifically designed for visualization of long read sequencing data generated by Nanopore sequencers like MinION. It can create quality control plots to help users assess the quality and characteristics of the sequencing data. Bioinformatics, Genomics, Sequencing Data, Quality Control, Visualization Biological Sciences Bioinformatics Tool Documentation, Uses, and more
nasm ACES
DeltaAI		 NASM (Netwide Assembler) is an 80x86 and x86-64 assembler designed for portability and modularity. It supports a range of object file formats, including Linux and Windows executables, and generates code compatible with Intel syntax. Assembler, Cross-Platform, X86, Programming Computer Science, Computer & Information Sciences Assembler Documentation, Uses, and more
nbclassic ACES Documentation, Uses, and more
nbo Expanse Natural Bond Orbital (NBO) analysis is a popular method for understanding chemical bonding in molecules. It provides insight into the nature of chemical bonds, bond strengths, and electron delocalization. Chemistry, Molecular Biology, Computational Chemistry Physical Chemistry, Chemical Sciences Molecular Modeling Documentation, Uses, and more
ncbi-vdb ACES NCBI-vdb is a collection of software tools for managing data from the NCBI Sequence Read Archive, the GenBank flatfile sequence databases, as well as a framework for loading data into third-party caller software. It provides tools for downloading, validating, transforming, and analyzing biological sequence data. Bioinformatics, Sequence Data Management, Data Analysis Bioinformatics, Biological Sciences Tool Documentation, Uses, and more
nccl ACES
Anvil
Delta
DeltaAI		 NCCL (NVIDIA Collective Communication Library) is a library of multi-GPU collective communication primitives that are topology-aware and can be used to implement collective communications algorithms within CUDA kernels. Cuda, Parallel Computing, Multi-Gpu Communication, Gpu Programming, Hpc Computer & Information Sciences Parallel Computing Documentation, Uses, and more
nccl-ofi-plugin DeltaAI Documentation, Uses, and more
ncdu Bridges-2
Ookami		 ncdu (NCurses Disk Usage) is a disk utility for analyzing disk usage in a terminal environment. It provides a fast way to see what directories are using the most space on a filesystem. Disk Utility, Disk Usage Analyzer, Terminal Tool, Storage Management Other Computer & Information Sciences Command Line Tool Documentation, Uses, and more
ncftp Delta ncftp is a powerful and easy-to-use command-line FTP client for various operating systems. It provides a wide range of features for transferring files over FTP protocols. Ftp Client, Command-Line Interface, File Transfer, Automation Other Natural Sciences Client Documentation, Uses, and more
ncl ACES
Anvil		 The NCAR Command Language (NCL) is a scripting language designed specifically for the analysis and visualization of scientific data. It is widely used in the atmospheric and related sciences. Scientific Data Analysis, Data Visualization, Atmospheric Sciences Environmental Sciences, Earth & Environmental Sciences Scripting Language Documentation, Uses, and more
nclncarg Stampede3 Documentation, Uses, and more
nco ACES
Anvil
Delta
Stampede3		 NCO (NetCDF Operators) is a suite of programs designed to help manipulate and analyze netCDF and HDF4 files. It provides a range of powerful tools for processing and analyzing climate and weather data stored in netCDF format. Data Manipulation, Data Analysis, Climate Data, Netcdf, Hdf4 Earth & Environmental Sciences Documentation, Uses, and more
ncurses ACES
Anvil
Delta
DeltaAI
KyRIC
Ookami		 ncurses is a programming library providing an API that allows the programmer to write text-based user interfaces on a terminal. Programming Library, Text-Based User Interfaces, Terminal Applications Computer Science, Computer & Information Sciences Programming/Development Documentation, Uses, and more
ncview Anvil
Bridges-2
Stampede3		 ncview is a visual browser for netCDF format files used for earth system data. It provides functionalities for viewing, analyzing, and interacting with data stored in netCDF files. Data Visualization, Netcdf, Earth System Data Earth & Environmental Sciences Data Analysis Tool Documentation, Uses, and more
ndiff Delta ndiff is a command-line tool for comparing two Nmap XML output files. It parses the XML files and identifies the differences in the scan results, including changes in host status, open ports, service versions, and other scan details. Network Security, Network Monitoring, Penetration Testing, Cybersecurity Computer & Information Sciences Security Tools Documentation, Uses, and more
nedit ACES Documentation, Uses, and more
neovim Delta Documentation, Uses, and more
netcdf ACES
Expanse
Ookami
Stampede3		 NetCDF (Network Common Data Form) is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. Scientific Data, Data Storage, Data Access, Data Formats, Data Manipulation, Data Visualization Other Natural Sciences Library Documentation, Uses, and more
netcdf-c Anvil
Delta		 NetCDF (Network Common Data Form) is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. Data Format, Scientific Data, Data Access, Data Sharing Other Natural Sciences Data Format Documentation, Uses, and more
netcdf-c++4 ACES netCDF-C++4 is a C++ interface for netCDF4, which is a software library and file format for storing multidimensional scientific data. It provides an object-oriented programming interface to the netCDF library, allowing users to read and write data stored in netCDF format using C++. Netcdf, C++ Interface, Scientific Data Storage Other Natural Sciences Data Storage Documentation, Uses, and more
netcdf-cxx4 Anvil netcdf-cxx4 is a C++ library for accessing netCDF-4 classic and extended model data formats. It provides a high-level interface for reading and writing netCDF-4 data files in C++. Netcdf, C++, Data Format Computer & Information Sciences Data Processing Documentation, Uses, and more
netcdf-fortran ACES
Anvil
Delta		 NetCDF-Fortran is a set of Fortran interfaces to the NetCDF library providing an easy-to-use, high-level access to the NetCDF file format for storing and sharing scientific data. Scientific Data, Fortran Interface, Netcdf Library Other Natural Sciences Programming Interface Documentation, Uses, and more
netcdf4-python ACES NetCDF4 is a Python interface to the netCDF version 4 library. NetCDF is a set of software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. Python Library, Netcdf, Scientific Data Handling, Array-Oriented Data, Data Storage & Access Earth & Environmental Sciences Library Documentation, Uses, and more
netlib-lapack Anvil
Delta		 Netlib LAPACK (Linear Algebra PACKage) is a widely-used library for numerical linear algebra. It provides routines for solving systems of simultaneous linear equations, least-squares solutions of linear systems of equations, eigenvalue problems, and singular value problems. Numerical Computing, Linear Algebra, Library, Numerical Analysis Computer & Information Sciences Library Documentation, Uses, and more
netlib-scalapack Delta ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines. ScaLAPACK solves dense and banded linear systems, least squares problems, eigenvalue problems, and singular value problems.
Description Source: https://www.netlib.org/scalapack/		 Documentation, Uses, and more
netperf Expanse
Ookami		 Documentation, Uses, and more
nettle ACES
DeltaAI		 Nettle is a cryptographic library that is designed to be low-level and general-purpose, offering several cryptographic algorithms such as AES, ARCFOUR, Blowfish, and MD5. Cryptography, Security, Library Computer & Information Sciences, Computer Science Library Documentation, Uses, and more
networkx ACES NetworkX is a Python package for the creation, manipulation, and study of complex networks or graphs. It provides data structures for representing many types of networks, algorithms for analyzing them, and visualization tools to display them. Python Library, Graph Theory, Network Analysis, Data Visualization Computer & Information Sciences Computational Software Documentation, Uses, and more
nextflow ACES
Anvil
Bridges-2		 Nextflow is a powerful workflow manager that enables the writing of parallel and scalable computational workflows using native, containerized, or cloud-enabled execution environments. Workflow Manager, Computational Biology, Data Science Biological Sciences Open Source Documentation, Uses, and more
nf-core Anvil NF-core is a collection of community curated Nextflow pipelines available for genomics, transcriptomics, and other bioinformatics analyses. It provides a collection of best practices workflows that are highly optimized, scalable, and easy to use. Bioinformatics, Workflow Management, Nextflow, Genomics, Transcriptomics Bioinformatics, Biological Sciences Data Analysis Tool Documentation, Uses, and more
ngc Anvil NGC is a cloud-based hub that provides users with a comprehensive catalog of GPU-optimized software for deep learning, machine learning, and HPC applications. It offers a platform for easy deployment and integration of GPU-accelerated applications in various domains. Cloud Computing, Deep Learning, Machine Learning, Hpc Computer & Information Sciences Platform Documentation, Uses, and more
ngc/cuquantum-appliance DeltaAI Documentation, Uses, and more
nghttp2 ACES
DeltaAI		 nghttp2 is an open-source implementation of the Hypertext Transfer Protocol version 2 (HTTP/2) and its header compression algorithm. The project also include a HTTP/2 server, client, and proxy. Http/2, Web Protocol, Networking Computer & Information Sciences Library Documentation, Uses, and more
nghttp3 ACES nghttp3 is an implementation of HTTP/3 and QUIC protocol in C programming language. It provides a low-level API for developers to interact with HTTP/3 and QUIC connections. Http/3, Quic, Networking, Protocol Computer & Information Sciences Protocol Documentation, Uses, and more
ngtcp2 ACES ngtcp2 is a C library implementation of the QUIC protocol (IETF draft) for building QUIC servers and clients. Quic Protocol, C Library, Networking Computer & Information Sciences Library Documentation, Uses, and more
nibabel ACES NiBabel is a Python library that provides read and write access to some common medical and neuroimaging file formats, including NIfTI-1, NIfTI-2, and Analyze. It aims to simplify the process of working with neuroimaging data in Python. Python Library, Neuroimaging, Medical Imaging, File Format, Nifti Biological Sciences Imaging & Visualization Documentation, Uses, and more
ninja ACES
Delta
DeltaAI
Ookami
Stampede3		 ninja is a small build system with a focus on speed. It differs from other build systems in that it is designed to have its input files generated by a higher-level build system (like CMake) and will not execute commands in parallel by default. Build System, Software Development, Automation Software Engineering, Systems & Development, Engineering & Technology Utility Documentation, Uses, and more
nlohmann_json ACES nlohmann_json is a JSON library for modern C++. It provides a simple and efficient way to work with JSON data in C++ programs. Json Library, C++ Computer & Information Sciences Data Handling Documentation, Uses, and more
nlopt ACES NLopt is an open-source library for nonlinear optimization problems. It provides a common interface for several different optimization algorithms, allowing users to easily switch between them. Optimization, Library, Open-Source Applied Mathematics, Mathematics Library Documentation, Uses, and more
nltk ACES
Anvil		 NLTK, or Natural Language Toolkit, is a leading platform for building Python programs to work with human language data. It provides easy-to-use interfaces to over 50 corpora and lexical resources such as WordNet, along with a suite of text processing libraries for classification, tokenization, stemming, tagging, parsing, and semantic reasoning. Python Library, Text Processing, Natural Language Processing Informatics, Analytics & Information Science, Computer & Information Sciences Text Analysis Documentation, Uses, and more
nmad ACES nMAD (normalized mean absolute deviation) is a measure of dispersion for a set of data points. It is used to quantify the variability or spread of the data. nMAD is calculated as the mean of the absolute differences between each data point and the mean of the data, divided by a constant factor for normalization. Statistics, Data Analysis, Data Normalization Other Mathematics Measurement Tool Documentation, Uses, and more
node Delta Node.js is an open-source, cross-platform JavaScript runtime environment that executes JavaScript code outside of a web browser. It allows developers to use JavaScript for server-side scripting and runs scripts server-side to produce dynamic web page content before returning this content to the client's web browser. Javascript, Server-Side Scripting, Cross-Platform Computer & Information Sciences Programming Platform Documentation, Uses, and more
nodejs ACES Node.js® is an open-source, cross-platform JavaScript runtime environment.
Description Source: https://nodejs.org/en		 Documentation, Uses, and more
nostack Expanse nostack is a platform that allows users to visually design and build custom web and mobile applications without writing code. It provides a visual interface for drag-and-drop creation of applications. Visual Development, No-Code Platform, Application Design, Web Development Engineering & Technology, Computer & Information Sciences Development Platform Documentation, Uses, and more
nosve Ookami Documentation, Uses, and more
nsight Expanse Documentation, Uses, and more
nspr ACES nspr (Netscape Portable Runtime) provides a platform-neutral API for system level and libc-like functions. nspr is a platform abstraction library for C/C++. It provides many useful APIs for cross-platform development. Platform-Abstraction, Cross-Platform, Api, System-Level Functions Computer & Information Sciences Documentation, Uses, and more
nss ACES Network Security Services (NSS) is a set of libraries designed to support cross-platform development of security-enabled client and server applications. It provides a complete open-source implementation of cryptographic libraries supporting Secure Sockets Layer (SSL) and Transport Layer Security (TLS) protocols. Security, Network, Encryption Computer & Information Sciences Security Documentation, Uses, and more
nsync ACES Nsync is a command-line tool for synchronizing files and directories between two locations. It allows users to easily mirror data between local and remote locations, ensuring that the contents are up to date in both places. File Synchronization, Data Mirroring, Command-Line Tool Computer Science, Engineering & Technology File Synchronization Tool Documentation, Uses, and more
ntl ACES ntl is a high-performance, portable C++ library providing data types for arbitrary length integers and floating-point numbers. It aims to offer efficient implementations for the fundamental algorithms in number theory. Arbitrary Length Integers, Number Theory, High-Performance Computing, C++ Library Pure Mathematics, Mathematics Data Types & Algorithms Documentation, Uses, and more
ntpoly ACES Documentation, Uses, and more
numactl ACES
Anvil
Expanse
KyRIC		 Numactl is a set of tools that allows you to have more control over NUMA (Non-Uniform Memory Access) systems. It provides utilities for memory placement and migration of processes and controlling the NUMA policy of a process. Numa, Memory Management, Performance Optimization Other Computer & Information Sciences, Engineering & Technology Tool Documentation, Uses, and more
numba ACES Numba is an open-source just-in-time (JIT) compiler that translates a subset of Python and NumPy code into fast machine code. Jit Compiler, Python Optimization, Numpy Optimization Computer & Information Sciences Open-Source Documentation, Uses, and more
numpy ACES NumPy is a fundamental package for scientific computing with Python. It contains functionality for multidimensional arrays, high-level mathematical functions such as linear algebra operations, Fourier transformations, and random number generation. NumPy can be utilized to solve linear algebraic equations, perform statistical analysis, create software simulations, and much more. Scientific Computing, Numerical Computing, Data Analysis, Mathematics Computer & Information Sciences, Mathematics Computational Software Documentation, Uses, and more
nvhpc ACES
Anvil
Bridges-2
Delta
DeltaAI
Jetstream2
Ookami		 NVIDIA HPC SDK is a comprehensive, integrated suite of compilers, libraries, and tools for the development and optimization of GPU-accelerated high-performance computing (HPC) applications. Hpc, Gpu Acceleration, Compilers, Libraries, Development Tools Computer Science, Computer & Information Sciences Development Tool Documentation, Uses, and more
nvhpc-byo-compiler Ookami Documentation, Uses, and more
nvhpc-hpcx Ookami Documentation, Uses, and more
nvhpc-mixed DeltaAI Documentation, Uses, and more
nvhpc-nompi Ookami Documentation, Uses, and more
nvhpc-openmpi3 Ookami Documentation, Uses, and more
nvhpc_latest Delta NVIDIA HPC SDK is a comprehensive suite of compilers, libraries, and tools for accelerating HPC applications on GPU-accelerated systems. Hpc, Compiler, Math Library, Software Development Engineering & Technology Tool Documentation, Uses, and more
nvidia Delta
DeltaAI		 NVIDIA Corporation is an American technology company that designs graphics processing units (GPUs) for the gaming, cryptocurrency, and professional markets, as well as system on a chip units (SoCs) for the mobile computing and automotive market. Graphics Processing Units, High-Performance Computing, Deep Learning, Data Analytics Computer & Information Sciences Graphics Processing Units Documentation, Uses, and more
nvidia compilers Stampede3 Documentation, Uses, and more
nvidia cuda toolkit Bridges-2 Documentation, Uses, and more
nvidia hpc sdk Anvil Documentation, Uses, and more
nvidia-mixed DeltaAI Documentation, Uses, and more
nvitop DeltaAI Documentation, Uses, and more
nvpl-blas DeltaAI Documentation, Uses, and more
nvpl-fft DeltaAI Documentation, Uses, and more
nvpl-lapack DeltaAI Documentation, Uses, and more
nvshmem ACES nvshmem is a GPU-accelerated implementation of the OpenSHMEM standard designed for NVIDIA GPUs. It provides a high-performance, parallel programming model for developing applications on GPU clusters. Gpu-Accelerated, Openshmem, Nvidia Gpus Computer & Information Sciences, Other Computer & Information Sciences Library Documentation, Uses, and more
nvtop ACES
Delta		 nvtop is an NVIDIA GPU system monitoring tool with a user-friendly CLI interface. It provides real-time monitoring of GPU utilization, memory usage, temperature, power consumption, and other important metrics. System Monitoring, Gpu Monitoring, Nvidia Gpu, Command-Line Interface, Performance Optimization Computer & Information Sciences Utility Documentation, Uses, and more
nwchem Anvil
Bridges-2
Delta
Stampede3		 NWChem is an open-source computational chemistry package designed for high-performance simulations of large-scale molecular systems. It provides various tools and algorithms for both classical and quantum chemical calculations. Computational Chemistry, High-Performance Computing, Open-Source Software Physical Chemistry, Chemical Sciences Computational Chemistry Software Documentation, Uses, and more
ocaml ACES Documentation, Uses, and more
oclfpga KyRIC oclfpga is an OpenCL framework for FPGA acceleration. It allows users to utilize the power of Field-Programmable Gate Arrays (FPGAs) for accelerating applications through OpenCL programming. Opencl, Fpga, Acceleration Engineering & Technology Framework Documentation, Uses, and more
octave Anvil
Bridges-2
Ookami		 Octave is a high-level interpreted language, primarily intended for numerical computations. It provides capabilities for the numerical solution of linear and nonlinear problems and has extensive graphics capabilities for data visualization and manipulation. Numerical Computations, Data Visualization Mathematics, Computer & Information Sciences Numerical Computation Software Documentation, Uses, and more
octopus Stampede3 Documentation, Uses, and more
ohpc KyRIC OpenHPC is a collaborative, community-driven effort to provide a comprehensive and cohesive open-source HPC stack to the community. Through close collaboration with key stakeholders across the industry, OpenHPC aims to provide a reference collection of open-source HPC software components and best practices to enable the development, testing, and deployment of HPC systems. Ultimately, building on the resecarch outputs from various related fields. Hpc, High Performance Computing, Open-Source, Collaborative, Community-Driven Engineering & Technology Computational Software Documentation, Uses, and more
oneapi Anvil OneAPI is a unified programming model that aims to simplify development across diverse architectures such as CPUs, GPUs, FPGAs, and other accelerators. It provides a single programming interface for developers to efficiently target and deploy applications in heterogeneous computing environments. Heterogeneous Computing, Unified Programming Model, Accelerated Computing, Performance Optimization Computer & Information Sciences Unified Programming Model Documentation, Uses, and more
onnx ACES
Anvil		 ONNX (Open Neural Network Exchange) is an open-source format for AI models. It enables interoperability between different frameworks, making it easier to move models between various tools and platforms. Ai, Machine Learning, Deep Learning Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Interoperability Format Documentation, Uses, and more
onnx-runtime ACES ONNX Runtime inference can enable faster customer experiences and lower costs, supporting models from deep learning frameworks such as PyTorch and TensorFlow/Keras as well as classical machine learning libraries such as scikit-learn, LightGBM, XGBoost, etc. ONNX Runtime is compatible with different hardware, drivers, and operating systems, and provides optimal performance by leveraging hardware accelerators where applicable alongside graph optimizations and transforms. Documentation, Uses, and more
oom-explain Ookami Documentation, Uses, and more
opari2 ACES OPARI2 (OpenMP Parallelizer and Runtime Instrumentation) is a tool for the parallelization and instrumentation of OpenMP programs. It helps to analyze and optimize the performance of parallel codes that use OpenMP directives. Parallelization, Performance Analysis, Openmp Computer & Information Sciences Compiler/Analyzer Documentation, Uses, and more
openbabel ACES Open Babel is a chemical toolbox designed to speak the many languages of chemical data. It’s an open, collaborative project allowing anyone to search, convert, analyze, or store data from molecular modeling, chemistry, solid-state materials, biochemistry, or related areas.
Description Source: https://openbabel.org/		 Documentation, Uses, and more
openblas ACES
Anvil
Bridges-2
Delta
DeltaAI
Expanse
KyRIC
Ookami		 OpenBLAS is an open-source implementation of the Basic Linear Algebra Subprograms (BLAS) library with optimized functions for matrix operations and linear algebra computations. It provides fast and efficient routines for common linear algebra operations. Linear Algebra, Blas Library, Optimized Functions, Open Source Mathematics, Computer & Information Sciences Documentation, Uses, and more
opencilk Stampede3 Documentation, Uses, and more
opencv ACES
Anvil
Bridges-2
Delta		 OpenCV (Open Source Computer Vision Library) is an open-source computer vision and machine learning software library. It provides a wide range of functionalities for real-time computer vision, including image processing, object detection, object tracking, and machine learning algorithms. Computer Vision, Image Processing, Machine Learning, Open Source Computer Science, Computer & Information Sciences Computer Vision Library Documentation, Uses, and more
openexr ACES OpenEXR is a high dynamic-range (HDR) image file format developed by Industrial Light & Magic (ILM) for use in computer imaging applications. It is used for the interchange of high-fidelity image data between different software applications. Image, File Format, High Dynamic-Range, Hdr, Image Data Engineering & Technology File Format Documentation, Uses, and more
openfoam ACES
Anvil
Bridges-2
Ookami
Stampede3		 OpenFOAM (Open Source Field Operation and Manipulation) is a free, open-source computational fluid dynamics (CFD) software package developed by the OpenFOAM Foundation. It is widely used for simulating complex fluid flows in various industries and academic research. Computational Fluid Dynamics, Open-Source Software, Finite Volume Method, Hpc Fluid Dynamics, Physical Sciences Computational Software Documentation, Uses, and more
openfold ACES openfold is a computational software tool designed for protein folding simulations and structural analysis. It allows researchers to study the folding pathways of proteins and investigate their three-dimensional structures. Computational Software, Molecular Dynamics Simulations, Protein Folding, Structural Analysis Biophysics, Biological Sciences Bioinformatics Documentation, Uses, and more
openimageio ACES OpenImageIO is a library for reading and writing images, and a bunch of related functionality, like dealing with image formats and color management. Image Processing, Color Management, Library, Image Formats, Cross-Platform Computer & Information Sciences Computational Software Documentation, Uses, and more
openjdk Anvil
Delta
Expanse
KyRIC		 OpenJDK (Open Java Development Kit) is a free and open-source implementation of the Java Platform, Standard Edition (Java SE). It is developed under the OpenJDK project as a collaboration between several companies and the open-source community. Open-Source, Java Development, Software Development, Programming Computer & Information Sciences Compiler Documentation, Uses, and more
openjpeg ACES OpenJPEG is an open-source JPEG 2000 codec written in C language. It aims to provide an open-source toolkit for JPEG 2000 encoding and decoding. OpenJPEG is free software licensed under the BSD-2-Clause. Jpeg 2000 Codec, Image Processing Software, Open-Source Software Computer & Information Sciences Codec Documentation, Uses, and more
openldap Expanse
Ookami		 OpenLDAP is an open-source implementation of the Lightweight Directory Access Protocol (LDAP) that provides a platform-independent, stable, and high-performance LDAP server suite. It is designed to provide robust, scalable, and secure directory services for managing user authentication, access control, and directory information. Ldap, Directory Services, Authentication, Access Control, Open Source Computer & Information Sciences System Software Documentation, Uses, and more
openmc ACES Documentation, Uses, and more
openmm ACES OpenMM is a widely-used open-source toolkit for molecular dynamics simulation. It provides a high-performance, flexible, and easy-to-use platform for the development of computationally intensive simulations of biomolecular systems. Molecular Dynamics, Biomolecular Simulations, Computational Chemistry, Biophysics, Gpu Acceleration Bioinformatics, Biological Sciences Molecular Dynamics Software Documentation, Uses, and more
openmpi ACES
Anvil
Bridges-2
Delta
Expanse
KyRIC
Ookami		 OpenMPI is an open-source Message Passing Interface (MPI) library that allows parallel computing on a distributed memory system. It enables high performance computing (HPC) by facilitating communication and coordination between processes running on multiple nodes. Mpi Library, Parallel Computing, High Performance Computing, Distributed Memory System Computer Science, Computer & Information Sciences Development Tools Documentation, Uses, and more
openmpi4 KyRIC The Open MPI Project is an open source Message Passing Interface implementation that is developed and maintained by a consortium of academic, research, and industry partners. Open MPI is therefore able to combine the expertise, technologies, and resources from all across the High Performance Computing community in order to build the best MPI library available.
Description Source: https://www.open-mpi.org/		 Library Documentation, Uses, and more
openpgm ACES OpenPGM is an open-source implementation of the Pragmatic General Multicast (PGM) protocol for reliable and scalable multicast communication. It offers high performance and reliability for applications requiring multicast messaging. Multicast Communication, Network Protocols, Open Source Software Computer & Information Sciences Networking Documentation, Uses, and more
openpmix Ookami OpenPMIX is an open-source package specifically designed for multi-party computation (MPC) applications, providing efficient and secure protocols for combining data from multiple parties without revealing individual inputs. It supports a range of MPC protocols and functionalities for privacy-preserving computations. Mpc, Privacy-Preserving Computations, Data Security, Open-Source Computer & Information Sciences Library/Toolkit Documentation, Uses, and more
openpyxl ACES Documentation, Uses, and more
openscenegraph ACES OpenSceneGraph (OSG) is an open-source high-performance 3D graphics toolkit that is widely used in the fields of virtual reality, simulation, visualization, and gaming. It provides a powerful scene graph API for rapid development of interactive 3D graphics applications. 3D Graphics, Virtual Reality, Simulation, Visualization, Gaming Engineering & Technology Library Documentation, Uses, and more
opensees Stampede3 OpenSees is an open-source software framework developed for simulating the seismic response of structural and geotechnical systems. It is widely used in civil engineering for earthquake engineering research, structural analysis, and performance-based design. Simulation, Finite Element Analysis, Earthquake Engineering, Structural Analysis, Geotechnical Engineering Civil Engineering, Engineering & Technology Finite Element Analysis (Fea) Documentation, Uses, and more
openshmemx DeltaAI OpenSHMEMX is a portable implementation of the OpenSHMEM API designed to provide a high-performance, flexible, and scalable parallel programming model for symmetric multiprocessing (SMP) and massively parallel processing systems. It extends the original OpenSHMEM and aims to simplify the development of parallel applications. Parallel Programming, High-Performance Computing, Distributed Memory Programming Computer Science, Computer & Information Sciences Parallel Programming Library Documentation, Uses, and more
openslide Bridges-2 Documentation, Uses, and more
openssh KyRIC OpenSSH is a suite of secure networking utilities based on the SSH protocol, providing encrypted communication sessions over a computer network using the SSH protocol. It offers secure remote login, secure file transfer, and public key authentication functionalities. Ssh, Secure Networking, Utilities Computer & Information Sciences Utility Documentation, Uses, and more
openssl ACES
Anvil
DeltaAI
KyRIC
Ookami		 OpenSSL is a robust, commercial-grade, and full-featured toolkit for the Transport Layer Security (TLS) and Secure Sockets Layer (SSL) protocols. It is also a general-purpose cryptography library. Cryptography, Security, Encryption, Networking Computer & Information Sciences, Other Computer & Information Sciences Documentation, Uses, and more
opensubdiv ACES OpenSubdiv is an open-source library that provides high-performance subdivision surface evaluation on massively parallel hardware. It generates high-quality surfaces, enabling detailed and complex geometry to be efficiently rendered and animated. Subdivision Surface, Rendering, Animation Computer & Information Sciences Graphics Documentation, Uses, and more
opensycl Ookami openSYCL is an open-source implementation of the SYCL standard, which is a higher-level programming model for developing C++ applications on heterogeneous systems with various accelerators such as GPUs, FPGAs, and other specialized processing units. It enables developers to write single-source C++ code that can target a variety of hardware accelerators without the need for low-level programming. Programming Model, Heterogeneous Systems, Accelerators Computer Science, Computer & Information Sciences Compiler Documentation, Uses, and more
operating system provided modules KyRIC Documentation, Uses, and more
optax ACES Documentation, Uses, and more
optix ACES OptiX is a GPU-accelerated ray tracing engine from NVIDIA that provides a programmable ray tracing pipeline for developers to build high-performance ray tracing applications. Ray Tracing, Gpu-Accelerated, Real-Time Rendering Computer Science, Computer & Information Sciences Gpu Software Documentation, Uses, and more
optuna ACES Optuna is an open-source hyperparameter optimization framework to automate hyperparameter search with a variety of flexible and powerful features for machine learning model training. Machine Learning, Hyperparameter Optimization, Automated Machine Learning, Optimization Framework Computer & Information Sciences Library Documentation, Uses, and more
orca ACES
Bridges-2
Delta
KyRIC		 Orca is a flexible, efficient, and powerful quantum chemistry software written by Frank Neese and co-workers. It provides accurate and reliable computational simulations of molecular structures and properties based on quantum mechanical methods. Quantum Chemistry, Computational Chemistry, Quantum Mechanics Physical Chemistry, Chemical Sciences Quantum Chemistry Software Documentation, Uses, and more
osu KyRIC Documentation, Uses, and more
osu-micro-benchmarks ACES
Delta		 OSU Micro-Benchmarks is a suite of parallel micro-benchmarks written in C with MPI and OpenMP implementations, designed for evaluating the performance of parallel computing systems and HPC networks. Performance Evaluation, Hpc, Benchmarking Engineering & Technology Tool Documentation, Uses, and more
otf2 ACES OTF2 is a trace format for event traces. It is mainly used for the scalable and efficient storage, transfer, and analysis of trace data generated by HPC applications. Trace Format, Event Traces, Hpc Applications Infrastructure & Instrumentation, Engineering & Technology Library Documentation, Uses, and more
ovito Anvil Documentation, Uses, and more
p11-kit ACES p11-kit is a library to manage PKCS#11 modules. It enables multiple applications to use the same PKCS#11 module in parallel, ensures that applications get access to the same serialized view of the module's state, and handles sharing access to the module state among applications. Library, Pkcs#11, Module Management Computer & Information Sciences Utility Documentation, Uses, and more
p4est Stampede3 p4est (parallel framework for dynamic load balancing and adaptive mesh refinement) is a software library that provides support for dynamic load balancing and adaptive mesh refinement in parallel numerical simulations. It is particularly useful for solving partial differential equations on unstructured grids efficiently. Computational Software, Library Engineering & Technology Library Documentation, Uses, and more
p7zip ACES
Expanse
Ookami		 p7zip is a command-line file archiver that supports the 7z compression format and various other archive formats. It is based on the open-source LZMA compression algorithm. File Archiver, Compression Software, Command-Line Tool, Open-Source Software Computer & Information Sciences Documentation, Uses, and more
padicotm ACES PadicoTM is a parallel discrete element method software package tailored for large-scale simulations of granular and multiphase flows. It is designed to efficiently model the behavior of particulate materials in various engineering and scientific applications. Dem, Granular Flows, Multiphase Flows, Simulation Software Engineering & Technology Computational Software Documentation, Uses, and more
pals Delta Documentation, Uses, and more
pandoc ACES Documentation, Uses, and more
pango ACES
Delta
DeltaAI		 Pango is a library for layout and rendering of text, with an emphasis on internationalization. It forms the core of text and font handling for the GTK+ toolkit and is used by a variety of other open-source projects, including GNOME desktop environment. Text Layout, Font Handling, Internationalization Computer & Information Sciences Text Processing Documentation, Uses, and more
papi ACES
Anvil
Delta
DeltaAI
KyRIC
Ookami
Stampede3		 PAPI (Performance Application Programming Interface) is a portable and efficient API that provides a consistent interface and methodology for collecting performance counter data from the underlying hardware. Performance Monitoring, Api, Hardware Counter Engineering & Technology Library Documentation, Uses, and more
parabricks ACES Parabricks is a GPU-accelerated toolkit that assists in fast and accurate genomic analysis. It is designed to efficiently process raw sequencing data, such as those generated by DNA sequencing technologies, for tasks like variant calling, mapping, and genome assembly. Genomic Analysis, DNA Sequencing, Variant Calling, Gpu Acceleration Genomics, Biological Sciences Toolkit Documentation, Uses, and more
parafly Anvil Parafly is a Python library for parallelizing and distributing task execution across multiple cores or nodes, aimed at improving computational efficiency for high-performance computing applications. Parallelization, Distributed Computing, Python Library Computer & Information Sciences Python Library Documentation, Uses, and more
parafold ACES Parafold is a software tool for RNA secondary structure prediction using deep learning models. It utilizes neural networks to predict RNA secondary structures from primary sequences. RNA Secondary Structure Prediction, Deep Learning, Neural Networks Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
parallel ACES
Anvil
Delta
DeltaAI
Expanse		 GNU Parallel is a command-line tool for Unix-like operating systems that allows the user to execute shell scripts or commands in parallel. It is designed to simplify parallel job execution on single or multiple processors without the need for complex scripting. Parallel Computing, Command-Line Tool, Task Scheduling Computer & Information Sciences Command-Line Tool Documentation, Uses, and more
parallel-netcdf Anvil
Bridges-2
Delta
DeltaAI
Stampede3		 Parallel-NetCDF is a library providing high-performance I/O in parallel environments for big data applications with large scientific datasets. It offers parallel I/O capabilities for NetCDF files, which are commonly used in climate modeling, weather forecasting, and other scientific disciplines. High-Performance I/O, Big Data, Parallel Computing Earth & Environmental Sciences, Physical Sciences I/O Library Documentation, Uses, and more
parameterized ACES Documentation, Uses, and more
paraview ACES
Anvil
Delta
Stampede3		 ParaView is an open-source, multi-platform data analysis and visualization application. It is designed to handle large data sets and offers a wide range of visualization techniques to analyze and interact with the data. Visualization, Data Analysis, Open-Source, Multi-Platform Physical Sciences, Engineering & Technology, Natural Sciences, Computer & Information Sciences, Other Natural Sciences Data Visualization Documentation, Uses, and more
paraview-osmesa Stampede3 Documentation, Uses, and more
parmetis ACES
Delta
Stampede3		 ParMETIS is an MPI-based parallel graph partitioning and sparse matrix ordering library designed for efficiently solving large, sparse graph problems. It provides high-performance graph partitioning, matrix reordering, and fill-reducing matrix ordering capabilities for a wide range of scientific computing applications. Graph Partitioning, Sparse Matrix Ordering, Scientific Computing, Parallel Computing Computer Science, Computer & Information Sciences Computational Tool Documentation, Uses, and more
parpack Stampede3 PARPACK is a software library for solving large scale eigenvalue problems. It is specifically designed to compute a few eigenvalues and corresponding eigenvectors of large sparse matrices. Eigenvalue Problems, Sparse Matrices, Numerical Linear Algebra Mathematics Library Documentation, Uses, and more
parsl ACES Documentation, Uses, and more
pasa ACES Documentation, Uses, and more
patch KyRIC Documentation, Uses, and more
patchelf ACES
Ookami		 PatchELF is a simple utility for modifying the dynamic linker and run-time library paths in executable files. Dependency Management, Executable Modification, Dynamic Linker Paths Computer & Information Sciences Library Management Documentation, Uses, and more
pax-utils Ookami pax-utils is a set of utilities that enable examination and manipulation of ELF (Executable and Linkable Format) files created for Linux systems. These tools are primarily used for analyzing and modifying various attributes of ELF binaries. Elf Files, Binary Analysis, Security Tools, Linux Computer & Information Sciences Utility Documentation, Uses, and more
pblat ACES pblat (Parallel BLAT) is a software tool that efficiently aligns biological sequences to a reference genome by using the BLAT algorithm in a parallel computing framework. It is specifically designed for high-throughput sequence analysis tasks, offering improved speed and scalability for large-scale genomic analyses. Bioinformatics, Sequence Alignment, Genomics, Parallel Computing Genomics, Biological Sciences Sequence Analysis Tool Documentation, Uses, and more
pciutils Expanse pciutils is a set of utilities for displaying information about PCI buses in the system and devices connected to them. It provides various tools for configuration, diagnostics, and monitoring of PCI devices in Linux systems. Pci Management, System Utilities, Linux Tools Computer & Information Sciences Command-Line Tool Documentation, Uses, and more
pcre ACES
Anvil
DeltaAI		 Perl Compatible Regular Expressions (PCRE) is a library for pattern matching with regular expressions. It implements the functionality of the regular expression library in Perl and provides support for Perl-style regular expressions in many programming languages. Regular Expressions, Pattern Matching, Library Biology, Computer & Information Sciences Runtime Library Documentation, Uses, and more
pcre2 ACES
DeltaAI
KyRIC
Stampede3		 PCRE2 is a C library implementing Perl-compatible regular expressions. It is a reimplementation of PCRE but with a different API that is designed to be compatible with Perl 5. It provides a regular expression matching engine that supports Perl-style patterns while also providing some features not found in Perl, such as matching up to 2^16 code units. Regular Expressions, Text Processing, Pattern Matching Biology, Computer & Information Sciences C Library Documentation, Uses, and more
pdal ACES PDAL is an open-source library for point cloud processing and data management. It offers a variety of tools and pipelines for manipulating geospatial data in the form of point clouds. Point Cloud, Geospatial Data, Lidar, Gis, Data Processing Other Natural Sciences Point Cloud Processing Documentation, Uses, and more
pdt ACES Program Database Toolkit (PDT) is a framework for analyzing source code written in several programming languages and for making rich program knowledge accessible to developers, analysts, and creating tools for source code understanding. Software, Programming, Source Code, Analysis Computer & Information Sciences Tools Documentation, Uses, and more
pdtoolkit KyRIC pdtoolkit is a Python library for exploratory data analysis and preprocessing of tabular data. It provides various tools and functions for data cleaning, transformation, feature selection, and visualization. Python Library, Exploratory Data Analysis, Data Preprocessing, Feature Selection, Visualization Computer & Information Sciences Python Library Documentation, Uses, and more
perftools DeltaAI Perftools is a collection of performance analysis tools designed to help developers optimize their software by identifying performance bottlenecks and areas for improvement. It includes a suite of profiling tools that can be used to analyze CPU and memory usage, as well as identify hotspots in code. Performance Analysis, Optimization, Profiling Engineering & Technology Performance Analysis Tools Documentation, Uses, and more
perftools-base Delta
DeltaAI		 perftools is a collection of performance analysis tools for Linux-based systems. perftools-base is the base package of perftools which includes basic performance analysis tools for profiling CPU and memory usage. Performance Analysis, Profiling, Linux Computer & Information Sciences Tool Documentation, Uses, and more
perftools-lite DeltaAI Perftools lite is a set of performance analysis tools designed for lightweight profiling and tracing of applications. It provides insights into the performance of software applications to help optimize and improve efficiency. Performance Analysis, Profiling, Tracing Computer Science, Computer & Information Sciences Software Tool Documentation, Uses, and more
perftools-lite-events DeltaAI Perftools Lite (PTL) provides a framework for lightweight performance analysis of parallel applications. It allows users to collect and analyze performance data to identify bottlenecks and optimize code performance. PTL focuses on event-based performance analysis to monitor and measure the execution behavior of parallel applications. Performance Analysis, Parallel Applications, Optimization Computer & Information Sciences Compiler/Profiler Documentation, Uses, and more
perftools-lite-gpu DeltaAI Perftools-lite-gpu is a lightweight performance analysis tool designed for GPU applications. It allows developers to analyze the performance of their GPU-accelerated applications by providing insightful metrics and visualizations. Performance Analysis, Gpu Applications, Metrics, Visualization Engineering & Technology Performance Analysis Tool Documentation, Uses, and more
perftools-lite-hbm DeltaAI PerfTools-Lite-HBM is a performance analysis tool specifically designed for profiling applications running on High Bandwidth Memory (HBM) systems. It provides insights into memory access patterns, cache behavior, and overall performance characteristics of HBM-enabled applications. Performance Analysis, Memory Profiling, Hbm Systems, High Bandwidth Memory, Optimization Engineering & Technology Profiler Documentation, Uses, and more
perftools-lite-loops DeltaAI The perftools-lite-loops software is a performance monitoring tool that focuses on analyzing loop-level performance in applications. It is designed to provide detailed insights into loop optimizations, dependencies, and potential performance bottlenecks in code. Performance Monitoring, Optimization, Debugging Computer & Information Sciences Analysis Tool Documentation, Uses, and more
perftools-preload DeltaAI perftools-preload is a tool designed to optimize and profile code performance by collecting runtime statistics, such as CPU utilization, memory usage, and function call traces. It is particularly useful for identifying performance bottlenecks and optimizing code for improved efficiency. Performance Optimization, Code Profiling, Software Performance, Debugging Computer & Information Sciences Tool Documentation, Uses, and more
perl ACES
Anvil
DeltaAI
KyRIC		 Perl is a high-level, general-purpose, interpreted, dynamic programming language known for its powerful text-processing features and used for a wide range of tasks including web development, system administration, and network programming. Programming Language, Text Processing, Scripting, Web Development, System Administration Computer & Information Sciences Programming Language Documentation, Uses, and more
perl-bioperl Anvil BioPerl is a collection of Perl modules that facilitate the development of Perl scripts for bioinformatics applications. It provides software modules for many of the typical tasks of bioinformatics programming. Documentation, Uses, and more
perl-bundle-cpan ACES A set of common packages from CPAN Documentation, Uses, and more
perl-bundle1-cpan ACES A collection of Perl modules and libraries available on CPAN (Comprehensive Perl Archive Network) bundled together for easy installation and management. Software Bundle, Perl Modules, Code Libraries Computer & Information Sciences Programming Libraries Documentation, Uses, and more
perl-bundle2-cpan ACES perl-bundle2-cpan is a Perl module that allows for the installation of multiple CPAN modules in one go, making it easier to manage dependencies and streamline the process of installing Perl modules. Perl, Cpan, Dependency Management, Module Installation Computer Science, Computer & Information Sciences Package Documentation, Uses, and more
petsc ACES
Anvil
Delta
DeltaAI
Ookami
Stampede3		 PETSc, the Portable, Extensible Toolkit for Scientific Computation, is a suite of data structures and routines for the scalable (parallel) solution of scientific applications modeled by partial differential equations. Scientific Computing, Computational Science, Numerical Analysis Natural Sciences Library Documentation, Uses, and more
petsc4py ACES Documentation, Uses, and more
pfft ACES Documentation, Uses, and more
phdf5 Bridges-2
Stampede3		 ph5util provides utilities for reading, writing, and manipulating PHDF5 files. PHDF5 is a parallel I/O file format based on the HDF5 file format and is used for storing large datasets efficiently across distributed storage systems. Parallel I/O, Phdf5, Hdf5, Large Datasets Computer & Information Sciences File Format Documentation, Uses, and more
phylip ACES Documentation, Uses, and more
phylip-suite Bridges-2 PHYLIP is a free package of programs for inferring phylogenies. It is distributed as source code, documentation files, and a number of different types of executables.
Description Source: https://phylipweb.github.io/phylip/		 Documentation, Uses, and more
physics-tenpy ACES TeNPy (short for ‘Tensor Network Python’) is a Python library for the simulation of strongly correlated quantum systems with tensor networks.
Description Source: https://pypi.org/project/physics-tenpy/		 Documentation, Uses, and more
picard ACES
Anvil
Bridges-2
Delta		 Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. It is primarily used for processing and analyzing next-generation sequencing (NGS) data in genomics. Bioinformatics, Ngs, Hts, Sequencing Data, Sam, Bam, Vcf Genomics, Biological Sciences Command Line Tool Documentation, Uses, and more
pigz ACES
Expanse		 pigz, which stands for parallel implementation of gzip, is a compression utility that uses multiple processors and cores to compress files quickly and efficiently. It is compatible with gzip and gunzip, allowing for seamless integration with existing gzip workflows. Compression, Parallel Processing, Utility, Command-Line Tool Computer & Information Sciences Utility Documentation, Uses, and more
pillow ACES Pillow is a powerful Python Imaging Library (PIL) replacement that adds image processing capabilities to your Python interpreter. Image Processing, Python Library Computer & Information Sciences, Software Engineering, Systems & Development Library Documentation, Uses, and more
pillow-simd ACES pillow-simd is an optimized fork of Python imaging library (PIL) with SIMD support, designed to enhance image processing capabilities with improved performance. Image Processing, Python Library, Optimization Computer & Information Sciences Image Processing Documentation, Uses, and more
pilon Bridges-2 Pilon is a software package that automates the improvement of draft assemblies of microbial genomes, using information from multiple sources to correct draft assemblies. Genome Assembly, Genomics, Bioinformatics, Computational Biology Genomics, Biological Sciences Tool Documentation, Uses, and more
pioman ACES Pioman is a Python package that provides tools for parallel input and output (IO) management. It aims to optimize IO performance in high-performance computing (HPC) environments by enabling efficient reading and writing of large datasets. Pioman is particularly useful for scientific simulations and data analysis workflows that involve heavy IO operations. Python Library, Hpc Tool, Io Management Computer & Information Sciences Library Documentation, Uses, and more
pipenv ACES Documentation, Uses, and more
pixman ACES
Anvil
DeltaAI		 Pixman is a low-level software library for pixel manipulation, providing software acceleration for numerous rendering operations. It is used primarily by projects requiring high-quality rendering such as the X server, Cairo, the GTK+ toolkit, and more. Pixel Manipulation, Rendering, Software Library, Performance Computer & Information Sciences Graphics Library Documentation, Uses, and more
pkg-config ACES pkg-config is a helper tool used when compiling applications and libraries. It helps to manage compiler and linker flags for libraries in the system. It simplifies the process of compiling and linking against libraries. Compilation, Library Management, Build Process Engineering & Technology Utility Documentation, Uses, and more
pkgconf ACES
DeltaAI
KyRIC		 pkgconf is a package configuration system. It helps to provide a uniform and system-agnostic API for the management of build and link flags. It replaces the functionality of pkg-config. Package Configuration, Build Flags, Link Flags, System-Agnostic Computer & Information Sciences Package Configuration Documentation, Uses, and more
pkgconfig ACES pkg-config is a helper tool used when compiling applications and libraries. It helps in specifying compilation options by providing the compiler options needed to use a library. It also provides information about installed libraries. Compilation, Library Management, Software Development Engineering & Technology Tool Documentation, Uses, and more
plink ACES PLINK (whole-genome association analysis toolset) is an open-source whole genome association analysis toolset designed to perform a range of basic, large-scale analyses in a computationally efficient manner. It enables users to carry out a variety of tasks, such as quality control, data management, and statistical analysis of genotypic data. Genetic Analysis, Genomic Data Analysis, Gwas, Genetic Epidemiology Genetics, Biological Sciences Tool Documentation, Uses, and more
plink2 Delta PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner. The focus of PLINK is purely on analysis of genotype/phenotype data, so there is no support for steps prior to this (e.g. study design and planning, generating genotype or CNV calls from raw data). Genomics, Association Analysis, Genotype-Phenotype Data Biological Sciences Tool Documentation, Uses, and more
plotly.py ACES Plotly.py is an open-source Python graphing library that makes interactive, publication-quality graphs online. It allows users to create interactive plots and dashboards using Python, with a high degree of customization and interactivity. Data Visualization, Graphing Library, Python Library Computer & Information Sciences Graphing Library Documentation, Uses, and more
plumed ACES
Bridges-2
Delta
Ookami		 PLUMED is an open-source library for free energy calculations in molecular dynamics simulations. It allows for the easy and flexible implementation of enhanced sampling techniques and the calculation of various collective variables. Molecular Dynamics, Enhanced Sampling, Free Energy Calculations, Collective Variables Chemistry, Biological Sciences Library Documentation, Uses, and more
ply ACES Ply is a pure-Python implementation of the popular Lex and Yacc parsing tools. It is designed to simplify the process of writing lexers and parsers in Python, providing a high-level, object-oriented interface that makes it easy to define grammars directly in the code. Parser, Lexer, Python, Parsing Computer & Information Sciences Library Documentation, Uses, and more
pmi Delta
DeltaAI		 PMI (Project Management Institute) is a global nonprofit professional organization for project management. It offers various certifications, standards, and resources for project managers. Documentation, Uses, and more
pmix ACES
KyRIC
Ookami		 The Process Management Interface (PMIx) is an abstract interface for managing the data and resources associated with managing parallel processes. It provides a framework and services for coordinating data exchange and interaction amongst parallel processes in high-performance computing environments. Process Management, Parallel Computing, High-Performance Computing, Data Exchange, Resource Management, Scalability Engineering & Technology Hpc Tool Documentation, Uses, and more
pnetcdf ACES
Stampede3		 PnetCDF is a parallel I/O library for accessing NetCDF files in parallel. It is specifically designed to address the scalability and performance limitations of serial NetCDF I/O by providing parallel I/O support. Parallel I/O, Netcdf Files, Scalability, Performance Physical Sciences I/O Library Documentation, Uses, and more
pocl ACES
Delta		 Portable Computing Language (pocl) is an open-source implementation of the OpenCL standard which aims to provide a portable programming layer for execution on various devices including CPUs, GPUs, and FPGAs. It enables developers to write parallel programs that can be executed efficiently across different hardware platforms. Opencl, Parallel Computing, Hardware Acceleration Computer Science, Computer & Information Sciences Development Tools Documentation, Uses, and more
poetry ACES Poetry is a dependency management and packaging tool for Python projects. It allows you to declare and manage project dependencies, create virtual environments, build and publish packages, and more. Dependency Management, Packaging, Python Computer & Information Sciences Package Manager Documentation, Uses, and more
polars ACES Documentation, Uses, and more
poppler ACES Poppler is a software utility library that is used to render PDF documents. It is a PDF rendering library based on the xpdf-3.0 code base. It provides various command-line utilities for working with PDF files as well. Pdf Rendering, Pdf Manipulation, Pdf Parsing Computer & Information Sciences Library Documentation, Uses, and more
popt KyRIC popt is a C library for parsing command line options. Command Line Options, C Library Computer & Information Sciences Command Line Option Parser Documentation, Uses, and more
porechop Bridges-2 Documentation, Uses, and more
portmidi ACES Documentation, Uses, and more
posix2ime Delta posix2ime is a software tool that converts POSIX timestamp to IME-mode timestamp in Linux systems. It is particularly useful for converting timestamps in the Input Method Editor (IME) mode, commonly used for inputting non-Latin characters in Asian languages. Timestamp Conversion, Linux Software, Ime-Mode Timestamp Computer & Information Sciences Conversion Tool Documentation, Uses, and more
postgresql ACES PostgreSQL is a powerful, open-source relational database management system known for its reliability, robustness, and performance. It offers advanced features such as multi-version concurrency control, point-in-time recovery, and full ACID compliance. Database Management, Relational Database, Open Source, Data Management Documentation, Uses, and more
pov-ray ACES POV-Ray (Persistence of Vision Raytracer) is a high-quality three-dimensional graphics tool that creates stunning photorealistic images using ray tracing techniques. It is a free, open-source software package that allows users to design detailed scenes using a specialized scripting language. 3D Graphics, Ray Tracing, Open-Source, Visualization Computer Science Visualization Software Documentation, Uses, and more
pplacer ACES pplacer is a phylogenetic placement tool that places query sequences on a fixed reference phylogenetic tree while simultaneously estimating their likelihoods. It is particularly useful for analyzing large collections of short reads, such as those generated from next-generation sequencing technologies. Phylogenetic Analysis, Sequence Placement, Phylogenetic Tree, Likelihood Estimation Biological Sciences Tool Documentation, Uses, and more
prank ACES PRANK is a probabilistic multiple sequence alignment program for DNA, codon and amino-acid sequences. It constructs multiple alignments by aligning sequences pairwise based on local alignment and phylogenetic information. Sequence Alignment, Bioinformatics, Genomics, Phylogenetics Genetics, Biological Sciences Computational Software Documentation, Uses, and more
precice Stampede3 Documentation, Uses, and more
prgenv Delta
DeltaAI		 Documentation, Uses, and more
prgenv-gnu Delta
DeltaAI		 The prgenv-gnu is a programming environment module that provides the GNU compiler collection (GCC) for compiling and running codes. It sets up the environment variables needed to compile and run programs using the GNU compilers. Programming Environment, Gnu Compiler Collection (Gcc) Computer & Information Sciences, Software Engineering, Systems & Development Compiler Documentation, Uses, and more
prgenv-nvhpc Delta
DeltaAI		 The prgenv-nvhpc module is part of the NVIDIA HPC SDK that provides an environment for compiling and running HPC applications on NVIDIA GPUs. It includes compilers, libraries, tools, and runtime support optimized for high-performance computing workloads. Hpc, Compiler, Gpu Computing, High-Performance Computing Computer & Information Sciences Compiler Documentation, Uses, and more
prgenv-nvidia Delta
DeltaAI		 prgenv-nvidia is a software environment that provides compilers and tools optimized for NVIDIA GPUs, allowing users to develop and execute GPU-accelerated applications efficiently. Software Environment, Compilers, Gpu Computing, Nvidia Computational Science, Computer & Information Sciences Compiler Documentation, Uses, and more
printproto DeltaAI Documentation, Uses, and more
prodigal ACES
Bridges-2		 Prodigal is a microbial gene finding program that identifies protein-coding regions in microbial genomes. It uses a combination of intrinsic and extrinsic signals to accurately predict genes in bacterial and archaeal genomes. Gene Prediction, Microbial Genomes Biological Sciences Bioinformatics Documentation, Uses, and more
proj ACES
Anvil
Delta
DeltaAI
Ookami
Stampede3		 PROJ is a standard Unix filter function designed to convert geographic longitude and latitude coordinates into Cartesian coordinates. It is widely used in geospatial applications for coordinate transformation and map projection. Geospatial, Coordinate Transformation, Map Projection Geography, Earth Sciences Coordinate Transformation Tool Documentation, Uses, and more
prokka ACES
Bridges-2		 Prokka is a software tool for rapid prokaryotic genome annotation. It annotates bacterial, archaeal, and viral genomes quickly and easily. Prokka performs a comprehensive annotation that includes gene prediction, functional annotation, and other genomic features. Genome Annotation, Bioinformatics, Genomics Genetics, Biological Sciences Annotation Tool Documentation, Uses, and more
protobuf ACES
Anvil		 Protocol buffers are a language- and platform-neutral extensible mechanism for serializing structured data. It enables you to define data structures in a JSON-like format and automatically generate code to serialize and deserialize them in a variety of languages. Serialization, Data Interchange, Code Generation Computer & Information Sciences Library Documentation, Uses, and more
protobuf-python ACES protobuf-python is a Python library for Protocol Buffers, Google's language-neutral, platform-neutral extensible mechanism for serializing structured data. Data Serialization, Binary Encoding, Data Validation, Structured Data, Extensible Computer & Information Sciences Serialization Documentation, Uses, and more
prrte ACES PRRTE (Proactive Resilience and Real-Time Executor) is a fault tolerance framework designed to provide fault tolerance capabilities to complex, high-performance computing (HPC) applications. It focuses on enabling applications to run to completion in the presence of faults by providing various resilience strategies. Fault Tolerance, Hpc, Resilience, Real-Time Execution Engineering & Technology Framework Documentation, Uses, and more
prun job launch utility KyRIC Documentation, Uses, and more
psutil ACES Documentation, Uses, and more
psycopg2 ACES Psycopg is a popular PostgreSQL database adapter for the Python programming language. It provides a robust, efficient, and well-supported interface for interacting with PostgreSQL databases from Python applications. Python Library, Database Adapter, Postgresql, Data Management Computer & Information Sciences Database Adapter Documentation, Uses, and more
ptex ACES A high-quality Japanese typesetting system based on TeX that is specifically optimized for the Japanese language. Typesetting, Tex, Japanese Language Languages & Literature, Humanities Typesetting Software Documentation, Uses, and more
pugixml ACES pugixml is a lightweight C++ XML processing library that consists of a simple and intuitive API. It is designed to be easy to integrate with other projects and provides efficient and fast XML parsing capabilities. Xml Processing, C++ Library, Xpath, Parsing Computer & Information Sciences Xml Processing Documentation, Uses, and more
puk ACES PM2 is an umbrella software suite for high-performance runtime systems. Modules may be installed and used together or separately. Documentation, Uses, and more
pukabi ACES Pukabi is a bioinformatics tool used for analyzing and visualizing phylogenetic trees. Bioinformatics, Phylogenetics, Tree Visualization Biological Sciences Documentation, Uses, and more
pwanalyzer Ookami PWAnalyzer is a software tool for analyzing protein-ligand interactions through molecular docking simulations. It allows users to study the binding modes and affinity of small molecules to target proteins, aiding in drug discovery and design. Protein-Ligand Interactions, Molecular Docking, Drug Discovery, Bioinformatics Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
py-cpuinfo ACES py-cpuinfo is a Python library to get CPU information by parsing data from /proc/cpuinfo. It provides information about the CPU and its features. Python Library, System Information, Cpu Information Computer & Information Sciences Python Library Documentation, Uses, and more
py-cutadapt Anvil py-cutadapt is a Python package for preprocessing high-throughput sequencing data. It trims adapter sequences, removes low-quality bases, and filters out reads that do not meet specified quality thresholds. Bioinformatics, Sequencing Data Processing, Python Package Genomics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
py-cython DeltaAI
KyRIC		 Py-Cython is a compiler for writing C extensions for the Python language. It allows for combining Python and C code seamlessly to improve performance and efficiency. Compiler, Python Library, Performance Optimization Computer & Information Sciences Development Tool Documentation, Uses, and more
py-flit-core DeltaAI Documentation, Uses, and more
py-gpaw Anvil Documentation, Uses, and more
py-htseq Anvil Py-htseq is a high-throughput sequencing (HTS) analysis tool in Python designed to process and analyze mapped sequence data, particularly for RNA-seq experiments. It facilitates gene expression analysis by counting reads that align to features in the reference genome or transcriptome. Hts Analysis, RNA-Seq, Sequence Data Processing, Gene Expression, Transcriptomics Bioinformatics, Biological Sciences Sequence Analysis Tool Documentation, Uses, and more
py-meson-python DeltaAI Documentation, Uses, and more
py-mpi4py Anvil py-mpi4py is a Python interface to the Message Passing Interface (MPI) standard for parallel computing, allowing users to utilize MPI functionality within Python scripts and applications. Python, Mpi, Parallel Computing Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
py-numpy Bridges-2
Delta
DeltaAI		 Python Library Documentation, Uses, and more
py-packaging DeltaAI Documentation, Uses, and more
py-pip DeltaAI py-pip is the official installer for Python packages from the Python Package Index (PyPI). It is used to install and manage software packages written in Python. Package Management, Python, Software Installation Computer & Information Sciences, Software Engineering, Systems & Development Package Management Documentation, Uses, and more
py-pyproject-metadata DeltaAI Documentation, Uses, and more
py-setuptools DeltaAI
KyRIC		 Setuptools is a package development process library designed to facilitate development and distribution of Python projects. It provides a common approach for managing project dependencies, packaging, and installation processes. Python, Package Development, Distribution, Dependency Management Computer Science, Computer & Information Sciences Package Management Documentation, Uses, and more
py-wheel DeltaAI Documentation, Uses, and more
py3dmol ACES Py3Dmol is a Python library that provides a simple way to use the 3Dmol.js molecular viewer in Jupyter notebooks or Python scripts. It enables interactive visualization of molecular structures and is particularly useful for educational purposes and research in chemistry, biochemistry, and structural biology. Molecular Visualization, Python Library Chemical Sciences, Biological Sciences Python Library Documentation, Uses, and more
pybind11 ACES pybind11 is a lightweight header-only library that exposes C++ types in Python and vice versa, mainly to create Python bindings for C++ libraries. It provides seamless interoperability between C++11 and Python without the need for boilerplate code or external tools. Software Development, Python Library, C++ Integration, Header-Only Library Computer & Information Sciences Interoperability Documentation, Uses, and more
pybiolib ACES Documentation, Uses, and more
pycairo ACES Pycairo is a set of Python bindings for the Cairo graphics library. It allows Python applications to use the powerful vector graphics capabilities provided by Cairo for creating high-quality 2D graphics and illustrations. Python, Graphics, 2D Graphics, Illustrations Computer & Information Sciences Visualization Library Documentation, Uses, and more
pycuda ACES PyCUDA is a Python library that enables easy access to NVIDIA's CUDA parallel computation API directly from Python. It allows for seamless integration of GPU computation into Python code, providing a high-level interface to CUDA operations. Python Library, Gpu Computing, Parallel Processing Computer & Information Sciences Python Library Documentation, Uses, and more
pycurl ACES Documentation, Uses, and more
pydantic ACES Pydantic is a data validation and settings management library in Python that provides data validation using Python type annotations. It enforces type hints at runtime, allowing you to define JSON-like data structures with Python types. Python Library, Data Validation, Settings Management Computer & Information Sciences Library Documentation, Uses, and more
pydicom ACES pydicom is a Python library for working with DICOM files and data. It provides tools for reading, modifying, and writing DICOM files, as well as accessing DICOM data elements and metadata. Python Library, Dicom Data, Medical Imaging Medical & Health Sciences Library Documentation, Uses, and more
pyfaidx ACES pyfaidx is a Python library that enables efficient random access to genome FASTA files in both uncompressed and gzipped formats. It provides a simple interface for indexing and querying sequences from FASTA files. Python Library, Genome Analysis, Bioinformatics Biological Sciences Genomics Documentation, Uses, and more
pyfr ACES PyFR is an open-source Python-based framework for solving fluid dynamics problems on many-core architectures. Fluid Dynamics, Finite Element Method, Computational Fluid Dynamics, High-Performance Computing Fluid Dynamics, Physical Sciences Framework Documentation, Uses, and more
pygame ACES Documentation, Uses, and more
pygobject ACES PyGObject is a Python module that enables developers to access GObject-based libraries in Python. It allows Python code to interact with and use functionalities provided by libraries written in the GObject introspection format. Python, Programming, Gobject-Based Libraries, Development Computer & Information Sciences Python Library Documentation, Uses, and more
pylauncher Stampede3 Documentation, Uses, and more
pyopengl ACES PyOpenGL is a cross-platform open source Python binding to OpenGL and related APIs that provides access to high-performance 2D and 3D graphics rendering capabilities. It allows developers to utilize the full feature set of OpenGL within Python applications. Graphics, Opengl, Python, 2D, 3D, Rendering Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
pyproj ACES Pyproj is a Python interface to the PROJ library for cartographic projections and coordinate transformations. Python Library, Geospatial Analysis, Cartographic Projections, Coordinate Transformations Earth & Environmental Sciences Geospatial Analysis Software Documentation, Uses, and more
pyqt-builder ACES Documentation, Uses, and more
pyqt5 ACES PyQt5 is a comprehensive set of Python bindings for the Qt application framework developed by Riverbank Computing. It allows Python programmers to create desktop applications with rich graphical user interfaces (GUIs) using Qt tools and libraries. Python, Gui, Qt, Desktop Applications Computer & Information Sciences Library Documentation, Uses, and more
pyrosetta ACES Documentation, Uses, and more
pysam ACES Pysam is a Python module that provides access to read, write, manipulate, and analyze SAM/BAM files used in bioinformatics. It allows seamless integration of SAMtools, a set of utilities for interacting with and post-processing short DNA sequence read alignments in SAM, BAM, or CRAM format. Bioinformatics, Sequence Analysis, Sam/Bam Files, Python Module Biological Sciences Library Documentation, Uses, and more
pytensor ACES PyTensor is a Python library for tensor operations and computations. It provides a high-level interface for handling multi-dimensional arrays and performing various tensor manipulations. Python Library, Tensor Operations, Scientific Computing Computer & Information Sciences Scientific Computing Documentation, Uses, and more
pytesseract ACES Pytesseract is a Python wrapper for Google's Tesseract-OCR Engine. It allows for easy integration of Tesseract OCR functionality in Python scripts. Ocr, Text Recognition, Image Processing Computer & Information Sciences Ocr Library Documentation, Uses, and more
pytest ACES Pytest is a testing framework that makes it easy to write simple and scalable tests in Python. It is a popular testing framework used for testing Python programs and libraries. Testing, Python, Framework Computer & Information Sciences Testing Framework Documentation, Uses, and more
pytest-flakefinder ACES pytest-flakefinder is a Pytest plugin that helps in detecting flaky tests by running them multiple times and analyzing the results. It identifies tests that fail intermittently due to non-deterministic behavior. Pytest Plugin, Test Automation, Flaky Test Detection Software Engineering, Systems & Development, Engineering & Technology Plugin Documentation, Uses, and more
pytest-rerunfailures ACES pytest-rerunfailures is a plugin for the pytest testing framework that automatically reruns failed test cases to improve test reliability. Software Testing, Python Libraries, Programming Tools Software Engineering, Systems & Development, Engineering & Technology Library Documentation, Uses, and more
pytest-shard ACES pytest-shard is a pytest plugin that allows test execution to be split across multiple workers for faster test runs. It enables parallel test execution by distributing the test load among several processes. Pytest, Testing, Parallelization Computer & Information Sciences Python Library Documentation, Uses, and more
pytest-xdist ACES pytest-xdist is a plugin for pytest that extends it with distributed testing capabilities. It allows for parallel execution of tests across multiple CPUs on the same machine or multiple machines, potentially reducing the overall test suite execution time. Pytest, Testing, Distributed Computing, Parallel Execution Computer & Information Sciences Python Library Documentation, Uses, and more
pythia ACES Pythia is a software package for event generation for high-energy collisions, implementing a number of hard scattering models for hadron collisions. It is commonly used in theoretical physics and high-energy physics research. Event Generation, High-Energy Collisions, Theoretical Physics, Particle Physics Particle & High-Energy Physics, Physical Sciences Scientific Software Documentation, Uses, and more
python ACES
Anvil
Bridges-2
Delta
DeltaAI
KyRIC
Ookami		 Python is a high-level, interpreted programming language known for its simplicity and readability. It supports multiple programming paradigms and has a vast ecosystem of libraries and frameworks. Programming Language, Interpreted Language, High-Level Language Computer & Information Sciences, Software Engineering, Systems & Development Language Documentation, Uses, and more
python-bundle-pypi ACES Python-bundle-pypi is a collection of Python package bundles available on the Python Package Index (PyPI). These bundles consist of multiple Python libraries and utilities grouped together for convenience in installation and usage. Python, Package, Pypi, Library, Utilities Computer & Information Sciences Utility Documentation, Uses, and more
python-isal ACES Python bindings for Intel Storage Acceleration Library (ISAL) that provides optimized functions for storage protocols and data transformation. Python Library, Data Transformation, Storage Protocols Computer & Information Sciences Python Library Documentation, Uses, and more
python-venv DeltaAI Documentation, Uses, and more
python-xxhash ACES Documentation, Uses, and more
python3 Expanse
Ookami
Stampede3		 Python3 is a versatile, high-level programming language that is known for its readability and simplicity. It supports multiple programming paradigms such as object-oriented, imperative, functional, and procedural programming. Python3 has a comprehensive standard library and a large ecosystem of third-party packages, making it suitable for a wide range of applications. Programming Language, Scripting Language Computer & Information Sciences, Computer Science, Other Computer & Information Sciences Interpreter Documentation, Uses, and more
python37 Expanse
Ookami		 Python is an interpreted, interactive, object-oriented programming language. It incorporates modules, exceptions, dynamic typing, very high level dynamic data types, and classes. It supports multiple programming paradigms beyond object-oriented programming, such as procedural and functional programming. Python combines remarkable power with very clear syntax. It has interfaces to many system calls and libraries, as well as to various window systems, and is extensible in C or C++. It is also usable as an extension language for applications that need a programmable interface. Finally, Python is portable: it runs on many Unix variants including Linux and macOS, and on Windows.
Description Source: https://docs.python.org/3/faq/general.html#what-is-python		 Documentation, Uses, and more
python_cacher Stampede3 python_cacher is a Python package for caching function results and improving computational efficiency by storing and retrieving expensive function calls. Python Library, Function Caching, Computational Efficiency Computer & Information Sciences Library Documentation, Uses, and more
pytorch ACES
Anvil
Bridges-2
Delta
Ookami		 PyTorch is an open-source machine learning library used for numerical computations and building deep learning models. Machine Learning, Deep Learning, Numerical Computation, Neural Networks Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Machine Learning Framework Documentation, Uses, and more
pytorch-bundle ACES Documentation, Uses, and more
pytorch-geometric ACES PyG (PyTorch Geometric) is a library built upon PyTorch to easily write and train Graph Neural Networks (GNNs) for a wide range of applications related to structured data.
Description Source: https://github.com/pyg-team/pytorch_geometric		 Python Library Documentation, Uses, and more
pytorch-lightning ACES PyTorch Lightning is the deep learning framework for professional AI researchers and machine learning engineers who need maximal flexibility without sacrificing performance at scale. Lightning evolves with you as your projects go from idea to paper/production.
Description Source: https://lightning.ai/docs/pytorch/stable/		 Python Library Documentation, Uses, and more
pyyaml ACES PyYAML is a YAML parser and emitter for Python. It supports YAML 1.2 specification and can parse and emit YAML data quickly and efficiently. Yaml, Parser, Emitter Other Computer & Information Sciences, Computer & Information Sciences Data Serialization Documentation, Uses, and more
pyzmq ACES PyZMQ is a Python library that provides bindings for ZeroMQ. ZeroMQ is a high-performance asynchronous messaging library that allows you to build distributed applications. Python Library, Messaging Library, Distributed Applications, Asynchronous Messaging Computer & Information Sciences Programming Library Documentation, Uses, and more
qca ACES QCA (Qualitative Comparative Analysis) is a comparative analytical method primarily used in the social sciences to analyze data sets involving categorical variables. It is a method for studying the relationships between the presence and absence of conditions and an outcome of interest. Qualitative Data Analysis, Comparative Analysis, Social Sciences Social Sciences Analytical Software Documentation, Uses, and more
qchem Stampede3 Q-Chem is an ab initio quantum chemistry software package for fast and accurate simulations of molecular systems, including electronic and molecular structure, reactivities, properties, and structure.
Description Source: https://www.q-chem.com/		 Chemistry Documentation, Uses, and more
qd Ookami qd is a library for fast computation of numerical quaternion and dual numbers. It provides tools for arithmetic operations, calculus, and linear algebra with quaternions and dual numbers. Library, Numerical Computation, Quaternions, Dual Numbers Mathematics Library Documentation, Uses, and more
qemu ACES
Anvil		 QEMU is a generic and open-source machine emulator and virtualizer that supports executing different operating systems and programs on a host operating system. It provides full system simulation, allowing users to run virtual machines with various architectures (x86, ARM, PowerPC, etc.) on a wide range of host platforms. QEMU can be used for various purposes such as development, testing, debugging, and virtualization. Virtualization, Emulation, System Development Biology, Computer & Information Sciences Virtual Machine Emulator Documentation, Uses, and more
qgis ACES
Anvil		 QGIS is a free and open-source cross-platform desktop geographic information system (GIS) application that supports viewing, editing, and analysis of geospatial data. Gis, Mapping, Geospatial, Open Source Earth & Environmental Sciences Geo-Spatial Software Documentation, Uses, and more
qhull ACES Qhull computes the convex hull, Delaunay triangulation, Voronoi diagram, halfspace intersection about a point, furthest-site Delaunay triangulation, and furthest-site Voronoi diagram. Computational Geometry, Libraries, Mesh Generation, Geometry Processing Other Mathematics Libraries Documentation, Uses, and more
qiime2 ACES QIIME 2™ is a next-generation microbiome bioinformatics platform that is extensible, free, open source, and community developed.
Description Source: https://qiime2.org/		 Biology Documentation, Uses, and more
qiskit ACES Documentation, Uses, and more
qiskit-aer Delta Documentation, Uses, and more
qjson ACES QJson is a Qt-based library that maps JSON data to QVariant objects. It allows for easy JSON serialization and deserialization in Qt applications. Json, Qt, Serialization, Deserialization Computer & Information Sciences Serialization/Deserialization Documentation, Uses, and more
qmsolve ACES Documentation, Uses, and more
qscintilla ACES QScintilla is a port to Qt of Neil Hodgson's Scintilla editing component. It provides a rich text editing features and is commonly used for source code editing in integrated development environments (IDEs) and text editors. Text Editing, Source Code Editing, Ides Engineering & Technology Text Editor Documentation, Uses, and more
qt Anvil Qt is a cross-platform C++ framework for application development. It provides a comprehensive set of libraries and tools for building graphical user interfaces, as well as for developing applications with network support, database integration, and more. C++ Framework, Application Development, Cross-Platform, Graphical User Interface, Network Programming, Database Integration Engineering & Technology Framework Documentation, Uses, and more
qt5 ACES
Stampede3		 Qt is a comprehensive cross-platform C++ application framework that is widely used for developing application software with a graphical user interface (GUI), and also used for developing non-GUI programs such as command-line tools and consoles for servers. It allows developers to write code once and deploy it across various desktop, mobile, and embedded operating systems without rewriting the codebase. Qt5 is the latest version of the Qt development framework. Software Development, Cross-Platform, Gui Development, C++ Framework Engineering & Technology Application Development Documentation, Uses, and more
qt5webkit ACES Qt 5 Webkit is a module for the Qt 5 framework that allows developers to integrate web content into their applications. It provides a web rendering engine based on the open-source WebKit engine, allowing Qt applications to display and interact with web content. Web Content Integration, Ui Development, Qt Framework Computer Science, Computer & Information Sciences Library Documentation, Uses, and more
qt6 ACES Documentation, Uses, and more
qtkeychain ACES QtKeychain is a Qt API to store passwords securely Password Management, Security Documentation, Uses, and more
quantum espresso Stampede3 Documentation, Uses, and more
quantum machine 9 (qm9) ACES Documentation, Uses, and more
quantum-espresso Anvil
Ookami		 Quantum Espresso is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials.
Description Source: https://www.quantum-espresso.org/		 Chemistry Package Documentation, Uses, and more
quantum_espresso Anvil Documentation, Uses, and more
quantumespresso ACES
Bridges-2
Ookami		 Quantum Espresso is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials.
Description Source: https://www.quantum-espresso.org/		 Chemistry Package Documentation, Uses, and more
quast ACES QUAST (Quality Assessment Tool for Genome Assemblies) is a software tool used for evaluating and comparing genome assemblies. It generates various metrics and statistics to assess the quality and accuracy of genomic assemblies. Genome Assembly, Bioinformatics, Quality Assessment Genomics, Biological Sciences Stand-Alone Tool Documentation, Uses, and more
quda ACES Documentation, Uses, and more
qupath Bridges-2 Documentation, Uses, and more
qwt ACES Qwt is a robust library for developing Qt applications that require 2D plotting and data visualization. It provides a set of classes and functions for creating various types of plots and graphs with different customization options. 2D Plotting, Data Visualization, Qt Applications Engineering & Technology Libraries Documentation, Uses, and more
r ACES
Anvil
Delta
DeltaAI
Jetstream2
KyRIC
Ookami		 R is a free software environment for statistical computing and graphics. It compiles and runs on a wide variety of UNIX platforms, Windows, and MacOS. Statistical Computing, Data Analysis, Statistical Graphics Biostatistics, Medical & Health Sciences Statistical Software Documentation, Uses, and more
r-bundle-bioconductor ACES Bioconductor provides tools for the analysis and coprehension of high-throughput genomic data. Documentation, Uses, and more
r-bundle-cran ACES Documentation, Uses, and more
r_flexiblas Delta r_flexiblas is a software package for solving linear systems with block-angular structures. It is based on the pre-conditioned flexible GMRES iterative solver combined with a block-ILU(0) pre-conditioner. The software is written in R and primarily designed for efficient solution of large, sparse linear systems arising from computational simulations in various scientific and engineering disciplines. Linear Systems Solver, Computational Mathematics, Iterative Methods, Sparse Linear Systems Applied Mathematics, Mathematics Linear Algebra Library Documentation, Uses, and more
r_tamu ACES r_tamu is a simulation software for thermal and mechanical unit operations in chemical engineering. Simulation Software, Chemical Engineering, Thermal Unit Operations, Mechanical Unit Operations Chemical Engineering, Engineering & Technology Engineering & Technology Documentation, Uses, and more
racon ACES Racon is a consensus module for correcting errors in long reads generated by third-generation sequencing technologies. It utilizes both a partially ordered de Bruijn graph and a fuzzy pairwise aligner to achieve high accuracy error correction. Bioinformatics, Sequence Analysis, Genomics Genomics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
rapidjson ACES RapidJSON is a fast JSON parser and generator for C++ with both SAX/DOM styles. It is designed to be highly memory efficient and is self-contained with no external dependencies. Json, C++, Parser, Generator, Sax, Dom, Memory Efficient Computer & Information Sciences Library Documentation, Uses, and more
rapids ACES RAPIDS is a suite of open-source software libraries and APIs built on NVIDIA CUDA for executing end-to-end data science and analytics pipelines entirely on GPUs. It allows for faster processing and analysis of big data. Data Science, Analytics, Gpu Computing Computer & Information Sciences Data Science Documentation, Uses, and more
rapidsai Anvil RAPIDS is a collection of open source software libraries and APIs that gives you the ability to execute end-to-end data science and analytics pipelines entirely on NVIDIA GPUs using familiar PyData APIs.
Description Source: https://rapids.ai/learn-more/#about		 Documentation, Uses, and more
rapsearch2 ACES Documentation, Uses, and more
rasterio ACES Rasterio is a Python library for reading and writing geospatial raster datasets. It is built on the capabilities of the GDAL (Geospatial Data Abstraction Library) and provides easy access to the functionalities for opening, reading, and writing geospatial raster data formats. Python Library, Geospatial Data, Raster Data, Gdal, Remote Sensing Earth & Environmental Sciences Data Processing/Analysis Documentation, Uses, and more
raven ACES Documentation, Uses, and more
raxml Bridges-2 RAxML (Randomized Axelerated Maximum Likelihood) is a software for phylogenetic analysis and inference of evolutionary trees. It is widely used for maximum likelihood-based phylogenetic tree estimation. Phylogenetics, Evolutionary Biology, Bioinformatics Systematics & Population Biology, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
ray-project ACES Ray is a fast and simple framework for building and running distributed applications. Documentation, Uses, and more
rclone Bridges-2
Expanse
Ookami		 Rclone is a command-line program to manage files on cloud storage. It is a powerful tool that supports various cloud storage services and allows users to sync files between different storage locations. Cloud Storage, File Synchronization, Command-Line Tool Computer & Information Sciences Data Management Documentation, Uses, and more
rdflib ACES RDFLib is a Python library for working with RDF (Resource Description Framework) data. It allows users to create, parse, modify, serialize, and query RDF graphs. Rdf, Python Library Computer & Information Sciences Data Management Documentation, Uses, and more
rdkit ACES RDKit is an open-source toolkit for cheminformatics that provides a wide range of functionality for cheminformatics, including molecular modeling, cheminformatics, and machine learning tools. Cheminformatics, Molecular Modeling, Cheminformatics Toolkit Chemical Sciences, Natural Sciences Toolkit Documentation, Uses, and more
re2 ACES RE2 is a fast, safe, thread-friendly, and efficient regular expression library. It provides better performance than many widely used regular expression libraries by using automata theory, generating linear-time matching algorithms. Regular Expression, Library, Performance, Thread-Safe Computer & Information Sciences Tool Documentation, Uses, and more
re2c ACES
DeltaAI		 re2c is a tool for writing fast and flexible lexer/scanner programs. It translates regular expressions into deterministic finite automata (DFA) and compiles them into C/C++ code. This allows for efficient lexical analysis of input streams. Lexer, Scanner, Regular Expressions, Dfa Computer & Information Sciences Tool Documentation, Uses, and more
readline Anvil
Delta
DeltaAI
KyRIC
Ookami		 GNU Readline is a free software library that provides line-editing and history capabilities for interactive programs with a command-line interface. It allows users to edit command lines as they are typed in, recall and re-edit previous input, and perform basic character manipulations. Gnu, Command Line Interface, Interactive Programs, Line Editing, History Manipulation Computer & Information Sciences Command Line Tool Documentation, Uses, and more
readline-devel Ookami The readline library provides a set of functions for use by applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The default editing mode is Emacs, but this can be changed when the application is run. In Emacs mode, the command line can be edited using the standard Emacs keystrokes. Software Development, Library, Command Line Editing Engineering & Technology Development Documentation, Uses, and more
redis ACES Redis is an open-source, in-memory data structure store that can be used as a database, cache, and message broker. It supports various data structures such as strings, hashes, lists, sets, sorted sets with range queries, bitmaps, hyperloglogs, geospatial indexes with radius queries, and streams. Database, Cache, Message Broker Computer & Information Sciences Data Store Documentation, Uses, and more
redis-py ACES redis-py is a Python client library for Redis, a popular in-memory data store. It allows Python developers to easily interact with a Redis database to store and retrieve data. Python Library, Database Interaction, In-Memory Data Store, Data Persistence Computer & Information Sciences Client Library Documentation, Uses, and more
reframe ACES ReFrame is a Python library for writing tests for High Performance Computing (HPC) systems. It provides a functional testing framework designed to support a variety of different HPC systems. Hpc, Python Library, Testing Framework Engineering & Technology Software Development Documentation, Uses, and more
relion ACES
Anvil		 Relion is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM). Cryo-Em, Image Processing, 3D Reconstruction, Macromolecular Complexes Bioinformatics, Biological Sciences Image Processing Documentation, Uses, and more
remora Stampede3 Remora is a lightweight and extensible Python library for parallel and distributed computing workflows. It simplifies the process of distributing tasks across multiple workers and managing dependencies in a distributed environment. Python Library, Parallel Computing, Distributed Computing Computer & Information Sciences Parallel & Distributed Computing Documentation, Uses, and more
renderproto Anvil Documentation, Uses, and more
rich-cli Bridges-2 Documentation, Uses, and more
rioxarray ACES rioxarray is a Python package that extends xarray to add geospatial capabilities by making use of rasterio for I/O operations with raster data. It enables reading and writing spatial raster data with ease and integrates seamlessly with xarray for analysis and manipulation of these geospatial datasets. Python Library, Geospatial Data, Raster Data, Data Processing Earth & Environmental Sciences Python Package Documentation, Uses, and more
rising ACES RISING (Rapidly Installed Systems Engineering) is an open-source systems engineering tool that focuses on automating the system development process. It provides a framework for designing, integrating, and verifying complex systems with an emphasis on modularity, reusability, and maintainability. Systems Engineering, Automation, Modularity, Reusability, Maintainability Software Engineering, Systems & Development, Engineering & Technology Systems Engineering Documentation, Uses, and more
rnaquast ACES RNAQuast is a quality assessment tool for de novo transcriptome assembly pipelines. It evaluates the quality of transcriptome assemblies by comparing them to a reference genome and measures various metrics to assess the completeness, correctness, and compatibility of the assembly. Bioinformatics, Transcriptome Analysis, Quality Assessment, Genomics Biological Sciences Quality Assessment Tool Documentation, Uses, and more
rnaview Bridges-2 RNAview is a software tool for visualizing RNA secondary structures. It provides an interactive graphical interface for users to explore and analyze RNA molecules' structural properties. RNA Secondary Structure, Visualization Tool, Bioinformatics Bioinformatics, Biological Sciences Molecular Biology Documentation, Uses, and more
root ACES ROOT is an open-source data analysis framework used by high-energy physics (HEP) experiments. It provides a range of tools for data manipulation, visualization, statistical analysis, and storage. ROOT is written in C++ and offers a scripting language called ROOT/CINT that allows for quick prototyping and interactive analysis. Data Analysis, Visualization, High-Energy Physics, Data Manipulation, Statistical Analysis Particle & High-Energy Physics, Physical Sciences Library Documentation, Uses, and more
rosetta ACES Documentation, Uses, and more
rpmrebuild ACES Documentation, Uses, and more
rsem ACES RSEM (RNA-Seq by Expectation Maximization) is a software package for estimating gene and isoform expression levels from RNA-Seq data. It quantifies the abundances of transcripts by calculating maximum likelihood estimates based on the Expectation-Maximization algorithm. RNA-Seq, Transcriptomics, Gene Expression, Bioinformatics Genomics, Biological Sciences Computational Tool Documentation, Uses, and more
rstudio Anvil
Expanse
Jetstream2
Ookami		 RStudio is an integrated development environment (IDE) for R, a programming language and environment widely used for statistical computing and graphics. RStudio provides an intuitive and productive user interface for R, allowing users to efficiently write, execute, and debug R code. Ide, Statistical Computing, Data Visualization, Programming Other Natural Sciences Ide Documentation, Uses, and more
ruamel.yaml ACES ruamel.yaml is a YAML 1.2 loader/dumper package for Python. It is a superset of the PyYAML library and it includes round-trip parsing (which allows for preserving comments and formatting when loading and then emitting the YAML data). Yaml, Parser, Dumper, Python Computer & Information Sciences Data Serialization Documentation, Uses, and more
ruby ACES Ruby is a dynamic, object-oriented programming language focused on simplicity and productivity. It has an elegant syntax that is easy to read and write, making it a popular choice for web development and scripting. Programming Language, Scripting Language, Web Development Computer & Information Sciences Programming Documentation, Uses, and more
rust ACES
Delta
Ookami		 Rust is a multi-paradigm system programming language focused on safety, speed, and concurrency. Programming Language, System Programming, Concurrency Computer & Information Sciences Compiler Documentation, Uses, and more
safetensors ACES Documentation, Uses, and more
salmon ACES
Delta		 Salmon is a wicked-fast program to provide quantification of transcript expression from RNA-seq data. RNA-Seq, Transcript Expression Quantification Genetics, Biological Sciences Tool Documentation, Uses, and more
samtools ACES
Anvil
Bridges-2
Delta		 Samtools is a suite of programs for interacting with high-throughput sequencing data generated in sequence alignment/map (SAM) format, such as those produced by the Short Read Mapping (SHRiMP) or Burrows-Wheeler Aligner (BWA) aligners. It allows various operations on SAM/BAM files, including indexing, sorting, merging, and manipulating sequence alignments. Sequence Analysis, Genomics, Bioinformatics Bioinformatics, Biological Sciences Command Line Tool Documentation, Uses, and more
sanitizers4hpc Delta
DeltaAI		 sanitizers4hpc is a toolset designed for detecting and removing memory errors and data races in high-performance computing (HPC) applications. It offers various sanitizers to enhance the reliability and performance of parallel programs. Memory Errors, Data Races, Hpc Applications Computer Science, Engineering & Technology Tool Documentation, Uses, and more
sanitytool Stampede3 Sanitytool is a software tool designed for ensuring the sanity and quality of software code by performing various checks and validations. It helps in identifying potential issues, bugs, and vulnerabilities in the codebase, ensuring a higher level of code quality and reliability. Software Quality Assurance, Code Analysis, Automated Testing, Continuous Integration Software Engineering, Systems & Development, Engineering & Technology Quality Assurance Tool Documentation, Uses, and more
scafacos ACES SCAFACOS (Single-Cell Analysis Framework for Assessing Clonal Outcomes of Signaling) is a computational tool designed for analyzing single-cell signaling data and inferring clonal outcomes in cellular systems. It is specifically tailored for studying cellular heterogeneity and clonal dynamics in response to signaling pathways. Computational Tool, Single-Cell Analysis, Signaling Pathways, Clonal Dynamics Cell Biology, Biological Sciences Data Analysis Tool Documentation, Uses, and more
scalapack ACES
Bridges-2
Ookami		 ScaLAPACK (Scalable LAPACK) is a parallel version of LAPACK (Linear Algebra PACKage) for distributed memory machines. It is designed to efficiently solve large-scale problems in numerical linear algebra using parallelism. Linear-Algebra, Numerical-Computing, Distributed-Computing, Parallel-Computing Other, Physical Sciences Library Documentation, Uses, and more
scalasca ACES
KyRIC
Ookami		 Scalasca is a software toolset for analyzing the performance behavior of parallel applications and specifically for identifying potential performance bottlenecks. It assists users in optimizing the performance of their parallel applications by providing scalable and usable performance data. Performance Analysis, Parallel Applications, Performance Optimization, Mpi Applications, Visualization Software Engineering, Systems & Development, Computer & Information Sciences Performance Analysis Tool Documentation, Uses, and more
scalene ACES Documentation, Uses, and more
schrodinger ACES Schrodinger is a leading provider of advanced molecular simulations and quantum chemistry software for Life Sciences and Materials Research. The software suite offers a wide range of tools for drug discovery and materials science applications. Molecular Simulations, Quantum Chemistry, Drug Discovery, Materials Research Documentation, Uses, and more
scikit-bio ACES scikit-bio is a Python library for bioinformatics that provides tools for biological data manipulation, analysis, and visualization. It offers functionality for working with biological sequence data, phylogenetic trees, and related metadata. Bioinformatics, Python Library, Biological Data Analysis, Sequence Analysis Bioinformatics, Biological Sciences Library Documentation, Uses, and more
scikit-build ACES Scikit-build is an improved build system generator for CPython C/C++/Fortran/Cython extensions. It provides better support for CMake and enables you to easily build Python packages containing C++, C, Fortran, or Cython code. Python Library, Build System, Cmake Integration Computer & Information Sciences Library Documentation, Uses, and more
scikit-build-core ACES Documentation, Uses, and more
scikit-cuda ACES scikit-cuda is a Python library that provides a Python interface to Nvidia's CUDA parallel computation API. It aims to make GPU programming more accessible to Python developers by providing GPU-accelerated linear algebra operations and other numerical algorithms. Python Library, Gpu Programming, Numerical Algorithms, Linear Algebra, Cuda Api Computer & Information Sciences Python Library Documentation, Uses, and more
scikit-image ACES scikit-image is an open-source image processing library for the Python programming language that is designed to work with NumPy arrays. It provides a collection of algorithms for image processing, segmentation, feature extraction, and more. Image Processing, Python Library Computer & Information Sciences Library Documentation, Uses, and more
scikit-learn ACES
Delta		 Scikit-learn is a machine learning library for the Python programming language. It features various classification, regression, and clustering algorithms including support vector machines, random forests, gradient boosting, k-means, and DBSCAN, among others. Scikit-learn is designed to interoperate with the Python numerical and scientific libraries NumPy and SciPy. Machine Learning, Python Library Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Libraries Documentation, Uses, and more
scipy-bundle ACES The scipy-bundle is a comprehensive collection of scientific computing tools built on top of the SciPy library. It includes a wide range of modules and packages for numerical processing, optimization, statistics, integration, interpolation, signal processing, and more. Scientific Computing, Numerical Processing, Statistics, Optimization, Signal Processing Computer & Information Sciences, Other Computer & Information Sciences Scientific Computing Documentation, Uses, and more
scons ACES SCons is an open-source software construction tool implemented in Python. It is designed to replace traditional build tools like Make with a more powerful and flexible build system. Build Tool, Software Construction, Automation, Python Engineering & Technology Build Tool Documentation, Uses, and more
score-p ACES Score-P is a performance measurement infrastructure designed to analyze and optimize the performance of parallel and distributed applications. It provides a set of measurement and analysis tools to assess the performance, scalability, and behavior of parallel applications. Software, Performance Measurement, Parallel Computing, Distributed Computing Engineering & Technology Tool Documentation, Uses, and more
scorep KyRIC The Score-P measurement infrastructure is a highly scalable and easy-to-use tool suite for profiling, event tracing, and online analysis of HPC applications. Score-P supports analyzing C, C++ and Fortran applications that make use of multi processing (MPI, SHMEM), thread parallelism (OpenMP, PThreads) and accelerators (CUDA, OpenCL, OpenACC) and combinations. It works in combination with Periscope, Scalasca, Vampir, and Tau.
Description Source: https://www.vi-hps.org/projects/score-p		 Documentation, Uses, and more
scotch ACES
Stampede3		 Scotch is a software package and library for graph and mesh partitioning, ordering, and clustering. It is designed to efficiently distribute data and computations across distributed memory parallel computers. Graph Partitioning, Mesh Partitioning, Parallel Computing, Distributed Memory Software Engineering, Systems & Development, Computer & Information Sciences Library Documentation, Uses, and more
sdl2 ACES Simple DirectMedia Layer is a cross-platform development library designed to provide low level access to audio, keyboard, mouse, joystick, and graphics hardware via OpenGL and Direct3D. It is used by video playback software, emulators, and popular games including Valve's Steam. Development, Multimedia, Graphics, Input-Output Engineering & Technology Development Documentation, Uses, and more
sdl2_image ACES Documentation, Uses, and more
sdl2_mixer ACES Documentation, Uses, and more
sdl2_ttf ACES Documentation, Uses, and more
sdsc Expanse SDSC (San Diego Supercomputer Center) is an organized research unit of the University of California, San Diego that provides cyberinfrastructure resources and services to researchers in the fields of computational science, data analytics, bioinformatics, and more. SDSC supports a wide range of scientific disciplines by offering high-performance computing resources, data storage solutions, software tools, consulting services, and training programs. Supercomputing, Research Support, Data Analytics, Cyberinfrastructure Computer & Information Sciences, Other Computer & Information Sciences, Engineering & Technology, Other Engineering & Technologies, Training, Infrastructure & Instrumentation Documentation, Uses, and more
sdsl-lite ACES Documentation, Uses, and more
seaborn ACES Seaborn is a Python data visualization library based on matplotlib. It provides a high-level interface for creating attractive and informative statistical graphics. Python Library, Data Visualization, Statistical Graphics Computer & Information Sciences Library Documentation, Uses, and more
sentencepiece ACES SentencePiece is an unsupervised text tokenizer and detokenizer mainly for Neural Network-based text generation systems where the vocabulary size greatly affects the model performance. Text Tokenizer, Neural Network, Text Generation Computer & Information Sciences Library/Tool Documentation, Uses, and more
sepp ACES SEPP (Satz per Partial Parsimony) is a software tool for aligning short DNA reads to a reference alignment in phylogenetic studies. It employs a phylogenetic placement strategy to assign reads to the reference tree in a computationally efficient manner. Phylogenetics, DNA Alignment, Phylogenetic Placement Bioinformatics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
seqkit ACES SeqKit is a cross-platform, ultrafast, and handy sequenced data manipulation toolkit. It allows users to quickly manipulate sequences in fasta/fastq format, including filtering, splitting, removing duplicates, converting formats, and extracting sequences. SeqKit is designed to be efficient and user-friendly for handling large-scale sequencing data. Sequence Manipulation, Fasta, Fastq Biological Sciences Bioinformatics Documentation, Uses, and more
seqlib ACES Documentation, Uses, and more
serf ACES Serf is a decentralized solution for cluster membership, failure detection, and orchestration. It is lightweight and highly available, providing a mechanism for event broadcasting and key/value storage. Cluster Management, Orchestration, Decentralized System Engineering & Technology Documentation, Uses, and more
settarg ACES
Bridges-2
Delta
DeltaAI
Stampede3		 Settarg is a command-line utility designed for setting target specific optimizations in C/C++ compilers. It helps in specifying optimization flags tailored for a particular CPU architecture to improve performance. Compilers, Optimization, Performance Enhancement, Command-Line Tool Computer & Information Sciences Command-Line Utility Documentation, Uses, and more
setuptools ACES Setuptools is a package development process library designed to facilitate packaging Python projects. It allows developers to specify project metadata, declare project dependencies, and create distributable packages that can be easily installed using the Python package manager, pip. Python Packaging, Package Management, Dependency Management Computer Science Library Documentation, Uses, and more
setuptools-rust ACES Setuptools-Rust is a Python library that extends the Setuptools build system, allowing you to build and distribute Rust packages from Python projects seamlessly. It simplifies the integration of Rust code into Python projects, making cross-language development easier and more efficient. Python Library, Build System, Rust Integration Software Engineering, Systems & Development, Computer & Information Sciences Plug-In/Extension Documentation, Uses, and more
shadow KyRIC Shadow is a versatile network simulator that is designed with the aim of providing not only an efficient and scalable simulation framework but also powerful and flexible scripting engines to automate complex simulations. Network Simulation, Scripting, Simulation Framework Computer Science, Computer & Information Sciences Network Simulator Documentation, Uses, and more
shap ACES SHAP (SHapley Additive exPlanations) is a unified approach to explain the output of any machine learning model. It connects game theory with local explanations, attributing the impact of each feature on a model's predictions. Explainability, Interpretability, Machine Learning, Model Explanation Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Python Library Documentation, Uses, and more
shapely ACES Shapely is a Python library for manipulation and analysis of planar geometric objects. It is based on the widely deployed GEOS (the engine of PostGIS) and JTS (from which GEOS is ported) libraries. Python Library, Geospatial Analysis, Geometric Objects Geographic Information Science, Earth & Environmental Sciences Python Library Documentation, Uses, and more
shared Expanse
Ookami		 Shared is a cloud-based collaboration platform that allows users to share files, documents, and information with team members or external collaborators. It provides a centralized location for real-time collaboration, file storage, version control, and communication. Collaboration Platform, Cloud-Based Software, File Sharing, Communication, Version Control Other Cloud-Based Platform Documentation, Uses, and more
siesta Bridges-2
Ookami
Stampede3		 Siesta is a computer program that performs electronic structure calculations based on density-functional theory. It is especially designed for tight-binding and ab-initio calculations in materials science. Electronic Structure Calculations, Density-Functional Theory, Materials Science Condensed Matter Physics, Physical Sciences Material Science Documentation, Uses, and more
silo Stampede3 Documentation, Uses, and more
singularity KyRIC
Ookami		 Singularity is an open-source container platform designed to create, run, and manage containers for scientific and high-performance computing (HPC) workloads. It focuses on providing secure and portable environments for researchers and developers. Containerization, Scientific Computing, Hpc, Research Computer & Information Sciences, Engineering & Technology Platform Documentation, Uses, and more
singularitypro Expanse SingularityPro is a container platform that allows users to create, deploy, and manage containers for high-performance computing (HPC) environments. It is designed to provide users with a flexible and scalable solution for running applications in isolated environments. Container Platform, Hpc, High-Performance Computing Engineering & Technology Container Platform Documentation, Uses, and more
sionlib ACES
KyRIC		 Sionlib is a library that provides an I/O interface for scientific data stored in self-describing Hierarchical Data Format (HDF5) files, often used in high-performance computing applications. It offers functionalities for reading and writing data, metadata management, and dataset manipulation, making it a valuable tool for handling complex scientific data structures. I/O Interface, Scientific Data, Hdf5 Files Documentation, Uses, and more
sip ACES SIP is a collection of tools that makes it very easy to create Python bindings for C and C++ libraries. It was originally developed in 1998 to create PyQt, the Python bindings for the Qt toolkit, but can be used to create bindings for any C or C++ library. For example it is also used to generate wxPython, the Python bindings for wxWidgets. Description Source: https://github.com/conda-forge/sip-feedstock/blob/main/recipe/meta.yaml Documentation, Uses, and more
sklearn Ookami Documentation, Uses, and more
slepc ACES SLEPc (Scalable Library for Eigenvalue Problem Computations) is a software library for the solution of large scale sparse eigenvalue problems. Eigenvalue Problems, Sparse Matrices, Parallel Computing Other Mathematics Numerical Computing Documentation, Uses, and more
slurm Expanse
Ookami		 Slurm is an open-source workload manager designed for Linux clusters of all sizes. It provides job scheduling, prioritization, and management capabilities to maximize the efficiency of cluster resources. Workload Manager, Cluster Management, High-Performance Computing Engineering & Technology Workload Manager Documentation, Uses, and more
slurm-env Delta slurm-env is a tool that helps manage environment variables for SLURM job scripts. SLURM, which stands for Simple Linux Utility for Resource Management, is an open-source job scheduler for Linux clusters. Slurm, Job Scheduler, Environment Variables, Linux Clusters Engineering & Technology Utility Tool Documentation, Uses, and more
smithwaterman ACES Documentation, Uses, and more
snappy ACES Snappy is a fast compressor/decompressor for big data. It aims for very high speeds and reasonable compression levels. Snappy is widely used in many large-scale data processing frameworks. Compression, Big Data, Data Processing Computer & Information Sciences Data Processing Tool Documentation, Uses, and more
sox ACES Documentation, Uses, and more
spack ACES
KyRIC
Ookami		 Spack is a flexible package management tool designed to support multiple versions of software, compilers, libraries, and tools on a wide range of platforms and configurations. It helps users easily install, uninstall, and manage software and dependencies in a reproducible and customizable way. Package Management, Software Installation, Dependency Management, Hpc, Scientific Computing Other Computer & Information Sciences Utility Documentation, Uses, and more
spacy ACES spaCy is a free, open-source library for advanced Natural Language Processing (NLP) in Python. It is designed with the goal of facilitating easy implementation of state-of-the-art NLP techniques. Nlp, Natural Language Processing, Python Library Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Library Documentation, Uses, and more
spades ACES
Bridges-2		 SPAdes (St. Petersburg genome assembler) is a de novo genome assembly software tool designed for single-cell and multi-cell bacterial genome projects. It uses a combination of de Bruijn graph and mismatch correction algorithms to assemble highly accurate and contiguous draft genomes. Genome Assembly, Bioinformatics, Computational Biology Biological Sciences Bioinformatics Tool Documentation, Uses, and more
spark ACES
Anvil
Bridges-2
Delta
Expanse		 Apache Spark is an open-source distributed computing system that provides an interface for programming entire clusters with implicit data parallelism and fault tolerance. Distributed Computing, Big Data, Data Processing Computer & Information Sciences Distributed Computing System Documentation, Uses, and more
sparsehash ACES sparsehash is a C++ library that provides several hash-map implementations. These implementations are designed to be very space-efficient, but still allow fast lookups. C++ Library, Hash-Map Implementations Computer & Information Sciences Data Structure Documentation, Uses, and more
spdlog Ookami spdlog is a header-only, feature-rich, and highly performant logging library for C++ which provides various logging outputs and log levels. Logging, C++, Performance Computer & Information Sciences, Computer Science, Software Engineering, Systems & Development Logging Documentation, Uses, and more
spfft ACES Documentation, Uses, and more
spglib ACES spglib is a software library for finding and manipulating the crystal symmetries written in C. It is primarily used for crystallography and solid-state physics research. Crystallography, Solid-State Physics Condensed Matter Physics, Physical Sciences Computational Software Documentation, Uses, and more
spglib-python ACES Spglib-python is a Python wrapper for the C library Spglib, which is a library for finding and manipulating spacegroup symmetry. It provides a wide range of functionalities for crystallography and solid-state physics calculations. Crystallography, Solid State Physics Condensed Matter Physics, Physical Sciences Python Library Documentation, Uses, and more
spice-server Anvil Documentation, Uses, and more
spython ACES Spython is a software tool that combines the functionalities of the Python programming language with specific features tailored for scientific computing, data analysis, and visualization tasks. It aims to streamline the workflow for researchers and scientists by providing an integrated environment for code development, data manipulation, and result visualization. Scientific Computing, Data Analysis, Visualization, Python Programming, Research Tools Computer & Information Sciences, Other Mathematics, Other Natural Sciences Scientific Computing Tool Documentation, Uses, and more
sqlalchemy ACES Documentation, Uses, and more
sqlite ACES
Anvil
Delta
DeltaAI
KyRIC
Stampede3		 SQLite is a C-language library that implements a small, fast, self-contained, high-reliability, full-featured, SQL database engine. SQLite is the most widely deployed SQL database engine in the world. The source code for SQLite is in the public domain. Relational Database, Sql, Database Management Computer & Information Sciences Library Documentation, Uses, and more
squashfs KyRIC SquashFS is a compressed read-only filesystem for Linux. It enables efficient storage of files, in a compressed format, with a focus on high compression ratios. Filesystem, Compression, Read-Only Computer Science, Computer & Information Sciences Filesystem Documentation, Uses, and more
sra toolkit Bridges-2 Documentation, Uses, and more
sra-toolkit ACES The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives.
Description Source: https://github.com/ncbi/sra-tools		 Biology Documentation, Uses, and more
sra-tools Delta SRA-tools is a set of software tools developed by the National Center for Biotechnology Information (NCBI) to assist with the download and analysis of high-throughput sequencing data from the Sequence Read Archive (SRA). Bioinformatics, Hpc Tools, Sequence Analysis, Data Processing, High-Throughput Sequencing Bioinformatics, Biological Sciences Analysis Tool Documentation, Uses, and more
sratoolkit Anvil
Expanse		 Biology Documentation, Uses, and more
sst-core ACES Documentation, Uses, and more
ssw ACES Documentation, Uses, and more
star ACES
Bridges-2
Delta		 STAR (Spliced Transcripts Alignment to a Reference) is a RNA-seq read aligner that maps RNA-seq data to a reference genome to identify splice junctions between exons. It is particularly useful for mapping reads that span multiple exons, thereby aiding in the analysis of alternative splicing events. Software, RNA-Seq, Read Aligner, Splice Junctions, Alternative Splicing Genetics, Biological Sciences Alignment Tool Documentation, Uses, and more
star-fusion Bridges-2 Star-Fusion is a computational tool developed to identify fusion transcripts from RNA-Seq data. It utilizes the STAR aligner to map reads and searches for evidence of chimeric transcripts, providing insight into gene fusions in cancer and other diseases. RNA-Seq, Fusion Transcripts, Gene Fusions, Computational Tool Bioinformatics, Biological Sciences Computational Software Documentation, Uses, and more
starpu ACES StarPU is a runtime system designed for heterogeneous multicore machines with accelerators. It offers a unified runtime system that can handle multi-threading, task parallelism, data management, and data locality management. StarPU is specifically tailored for dense numerical linear algebra operation kernels and iterative solvers. Runtime System, Heterogeneous Computing, Multicore Architectures Other Hpc Tool Documentation, Uses, and more
stat Delta
DeltaAI		 Stat is a statistical software package designed for data analysis, statistical modeling, hypothesis testing, and visualization. Statistics, Data Analysis, Statistical Modeling, Hypothesis Testing, Visualization Mathematics Data Analysis Tool Documentation, Uses, and more
statsmodels ACES Statsmodels is a Python module that provides classes and functions for the estimation of many different statistical models, as well as for conducting statistical tests, and statistical data exploration. It also includes machine learning algorithms, such as clustering algorithms and supervised learning models. Statistics, Data Analysis, Machine Learning, Python Statistics & Probability Data Analysis & Statistics Documentation, Uses, and more
strace ACES strace is a diagnostic, debugging and instructional userspace utility for Linux. It is used to monitor and tamper with interactions between processes and the Linux kernel, which include system calls, signal deliveries, and changes of process state. Debugging, Diagnostic, Monitoring Computer & Information Sciences Diagnostic Tool Documentation, Uses, and more
stringtie Delta StringTie is a software for transcript assembly and quantification of RNA-Seq data. It is designed to efficiently assemble and quantify full-length transcripts representing multiple splice variants for each gene locus. RNA-Seq, Transcript Assembly, Transcript Quantification Biological Sciences Transcriptomics Tool Documentation, Uses, and more
subversion ACES
Delta
Expanse		 Subversion (SVN) is an open-source version control system that allows users to manage files and directories, track changes in the source code, and collaborate with team members on software development projects. Version Control, Software Development, Collaboration, Teamwork Computer & Information Sciences Development Tools Documentation, Uses, and more
suitesparse ACES
Stampede3		 SuiteSparse is a suite of sparse matrix algorithms and solvers available in the form of libraries that are designed to efficiently handle sparse matrices commonly encountered in numerical computations. Sparse Matrix, Algorithms, Numerical Computations Other Mathematics Computational Software Documentation, Uses, and more
sundials ACES
Stampede3		 SUNDIALS (Suite of Nonlinear and Differential/Algebraic Equation Solvers) is a software package for the solution of large-scale, time-dependent nonlinear differential/algebraic systems. Software, Numerical Integration, Differential Equations, Algebraic Equations, Scientific Computing Other Mathematics Library Documentation, Uses, and more
superlu ACES SuperLU is a software package for solving large, sparse, nonsymmetric systems of linear equations on high-performance computers. It is based on the LU factorization with partial pivoting and triangular solution of the linear system. Linear Algebra, Sparse Matrix, Direct Solver, Computational Science Applied Mathematics, Mathematics Solver Library Documentation, Uses, and more
superlu_dist ACES SuperLU_DIST is a parallel direct solver for large sparse systems of linear equations. It is designed for distributed memory parallel computers and can solve general, unsymmetric, linear systems Ax = b. Linear Solver, Sparse Systems, Parallel Computing Applied Mathematics, Mathematics Library Documentation, Uses, and more
swig ACES
Anvil
DeltaAI
Stampede3		 SWIG (Simplified Wrapper and Interface Generator) is a software development tool that connects programs written in C and C++ with scripting languages such as Perl, Python, Ruby, Tcl, and more. It simplifies the process of creating interfaces for these languages, enabling developers to easily incorporate C/C++ code into their scripting language-based projects. Software Development, Programming Tool, Scripting Languages, Interface Generator Computer & Information Sciences, Software Engineering, Systems & Development Interface Generator Documentation, Uses, and more
syclomatic ACES Documentation, Uses, and more
sylph Ookami Documentation, Uses, and more
sympy ACES SymPy is a Python library for symbolic mathematics that aims to become a full-featured computer algebra system. It provides capabilities for symbolic computation, algebraic manipulation, calculus, equation solving, and more. Symbolic Mathematics, Computer Algebra System, Mathematics, Python Library Pure Mathematics, Mathematics Scientific Computing Documentation, Uses, and more
synthcity ACES SynthCity is a software for urban simulation and modeling that allows researchers to simulate various aspects of urban environments and study the effects of different urban planning strategies. It provides a platform for detailed spatial analysis and scenario planning. Urban Planning, Simulation Software, Spatial Analysis, Scenario Planning, Data Visualization Library Documentation, Uses, and more
sz Stampede3 Documentation, Uses, and more
szip ACES szip is a compression tool specifically designed for scientific data sets. It is optimized for enhancing the performance of reading and writing data stored in the HDF5 file format by reducing the file size. szip uses a lossless compression algorithm to achieve data compression while maintaining data integrity. Compression Tool, Scientific Data Sets, Hdf5 File Format Other Natural Sciences, Engineering & Technology Utility Documentation, Uses, and more
tabixpp ACES Documentation, Uses, and more
tacc Stampede3 TACC (Texas Advanced Computing Center) provides comprehensive advanced computing resources and support services to researchers, enabling them to address some of society's most challenging problems. High-Performance Computing, Advanced Computing Resources, Visualization, Data Analysis, Storage Solutions, Cloud Computing, Training, Education Programs Infrastructure & Instrumentation, Engineering & Technology Hpc Tools Documentation, Uses, and more
tacc tips Stampede3 Documentation, Uses, and more
talloc ACES Documentation, Uses, and more
tar Anvil
KyRIC		 tar is a software utility used for packaging files together into an archive file often referred to as a "tarball". It is commonly used in Unix-like operating systems for creating, storing, and managing files in a single file. File Archiving, Compression, Terminal Other, Computer & Information Sciences File Management Documentation, Uses, and more
tau KyRIC
Ookami		 Tau is a performance analysis tool for parallel programs, providing insights into the behavior of applications across various HPC platforms. Software, Compiler, Hpc Tools Physical Sciences Commercial Documentation, Uses, and more
tbb ACES
KyRIC		 Intel Threading Building Blocks (TBB) is a widely-used C++ template library for multicore programming that provides rich features for parallel programming. It offers a high-level abstraction for expressing parallelism to help developers create scalable, high-performance applications. Multicore Programming, Parallel Computing, C++ Library, High Performance Computing Computer & Information Sciences Programming Library Documentation, Uses, and more
tbb32 KyRIC Intel Threading Building Blocks (TBB) is a widely used C++ template library developed by Intel for parallel programming on multi-core processors. TBB provides higher-level abstractions for parallelism, making it easier to write code that can take advantage of multicore processors. Parallel Programming, Multi-Core Processors, C++ Template Library, Intel Computer & Information Sciences Library Documentation, Uses, and more
tbl2asn ACES Documentation, Uses, and more
tcl ACES
Anvil
Delta
Expanse		 Tool Command Language (Tcl) is a dynamic programming language often used for creating scripts, applications, and embedded control systems. It provides a simple scripting language and a powerful code execution environment for various platforms. Scripting Language, Dynamic Programming Language, Cross-Platform, Scripting Computer & Information Sciences Language Interpreter Documentation, Uses, and more
tcsh ACES Tcsh is a command language interpreter that is based on and compatible with the C shell (csh). It offers extensive customization options and interactive features for command-line users. Command-Line Interpreter, Shell Scripting, Unix-Like Operating Systems Computer & Information Sciences Language Interpreter Documentation, Uses, and more
template Ookami Documentation, Uses, and more
tensorboard ACES
Delta		 TensorBoard is a suite of web applications for inspecting and understanding the TensorFlow runs and graphs. It enables visualization of TensorFlow graphs, as well as monitoring of training progress and evaluation metrics. Tensorflow, Deep Learning, Visualization, Model Monitoring Computer & Information Sciences Web Application Documentation, Uses, and more
tensorboardx ACES TensorBoardX is a library for visualization and tracking of TensorFlow deep learning models. It enables visualization of training and testing processes, model graphs, scalar values, histograms, images, text, audio, and videos. It extends the functionality of TensorFlow's native TensorBoard with additional features and flexibility. Visualization, Deep Learning, Tensorflow, Pytorch Computer & Information Sciences Library Documentation, Uses, and more
tensorflow ACES
Anvil
Bridges-2
Delta		 TensorFlow is an open-source machine learning library developed by Google to build and train deep learning models. Machine Learning, Deep Learning, Neural Networks, Model Training Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Machine Learning Framework Documentation, Uses, and more
tensorflow-probability ACES TensorFlow Probability (TFP) is a library for probabilistic reasoning and statistical analysis. Documentation, Uses, and more
tensorrt ACES TensorRT is a high-performance deep learning inference optimizer and runtime for production deployment of deep learning applications. It maximizes runtime performance through optimizations like kernel fusion, layer fusion, and precision calibration. TensorRT also delivers low latency and high throughput for deep learning inference by leveraging GPU hardware. Deep Learning Inference, Optimization, Gpu Acceleration, Production Deployment Computer & Information Sciences Runtime Documentation, Uses, and more
tensorstore ACES Documentation, Uses, and more
tesseract ACES Tesseract is an open-source OCR (Optical Character Recognition) engine that can be used to extract text from various sources like images, PDFs, and scanned documents. Ocr, Text Recognition, Open-Source, Cross-Platform Computer & Information Sciences Ocr Tool Documentation, Uses, and more
texlive ACES
Anvil
Ookami
Stampede3		 TeX Live is a comprehensive TeX and LaTeX distribution that provides an extensive collection of TeX-related programs, fonts, and macro packages. It offers a cross-platform TeX system for typesetting documents, mathematical formulas, publications, and other text-heavy content, widely used in academia, publishing, and science. Documentation, Uses, and more
theano ACES Theano is an open-source symbolic mathematical library, used for deep learning and numerical computation, that allows you to define, optimize, and evaluate mathematical expressions involving multi-dimensional arrays efficiently. Mathematical Library, Deep Learning, Numerical Computation Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Symbolic Mathematical Library Documentation, Uses, and more
tiger Bridges-2 TIGER (Topical Information in Genomic Experiments) is a software suite designed for the analysis and interpretation of genomics and transcriptomics data. It offers a range of tools for processing and visualizing genomic data to facilitate research in molecular biology and genetics. Genomics, Transcriptomics, Data Analysis, Molecular Biology, Genetics Genomics, Biological Sciences Tool Documentation, Uses, and more
time ACES
Delta		 Time is a fundamental quantity used to sequence and compare events. It is a concept which enables the measurement of durations and intervals, and forms the basis of various systems for measuring and quantifying changes. Time, Measurement, Events, Synchronization Other Measurement & Timekeeping Documentation, Uses, and more
tinker-hp Delta Tinker-HP is a molecular modeling software designed for high-performance simulations of biomolecular systems. It provides tools for molecular dynamics simulations, energy minimization, and analysis of complex biomolecular structures. Molecular Modeling, Biomolecular Systems, Simulations Biophysics, Biological Sciences Molecular Dynamics Simulation Software Documentation, Uses, and more
tk ACES
Anvil
Delta		 Tkinter is a standard GUI toolkit for Python. It is included with most Python installations and is widely used for building desktop applications in Python. Gui, Python, Toolkit, Desktop Applications Computer & Information Sciences, Computer Science, Software Engineering, Systems & Development Library Documentation, Uses, and more
tkinter ACES Tkinter is the standard GUI (Graphical User Interface) toolkit for Python. It provides a fast and easy way to create desktop applications with a collection of standard GUI elements. Gui, Toolkit, Python Library Computer & Information Sciences Gui Toolkit Documentation, Uses, and more
tlparse ACES Documentation, Uses, and more
tmux ACES tmux is a terminal multiplexer that allows users to access multiple separate terminal sessions inside a single terminal window or remote shell. It enables users to switch easily between several programs in one terminal, detach them (leave them running in the background), and reattach them to a different terminal. Terminal, Multiplexer, Session Management, Productivity Computer & Information Sciences Text-Based Documentation, Uses, and more
tokenizers ACES Documentation, Uses, and more
topaz ACES Documentation, Uses, and more
tophat Anvil Tophat is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to the genome using the Bowtie aligner and then analyzes the mapping results to identify splice junctions between exons. RNA-Seq, Splice Junction Mapper, Genomics Biological Sciences Genomic Analysis Tool Documentation, Uses, and more
torchani Anvil TorchANI is a PyTorch implementation of the ANI (Anisotropic Network Model) neural network potential for predicting molecular interactions and properties in chemical systems. Computational Chemistry, Machine Learning, Python Library, Chemical Modeling Physical Chemistry, Chemical Sciences Python Library Documentation, Uses, and more
torchaudio Delta Documentation, Uses, and more
torchsampler ACES torchsampler is a library for data sampling in PyTorch, designed to efficiently handle various sampling strategies and techniques to improve data processing and training of deep learning models. Data Sampling, Pytorch, Deep Learning Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Data Sampling Documentation, Uses, and more
torchtext ACES torchtext is a library used for natural language processing (NLP) tasks in PyTorch. It provides utilities and datasets for processing text data, such as tokenization, vocabulary building, word embeddings, and data loading for NLP models. Nlp, Natural Language Processing, Pytorch, Text Processing Computer & Information Sciences Library Documentation, Uses, and more
torchvision ACES
Delta		 Torchvision is a package in the PyTorch deep learning framework that consists of popular datasets, model architectures, and common image transformations for computer vision tasks. Deep Learning, Computer Vision, Image Processing Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Deep Learning Documentation, Uses, and more
tornado ACES Tornado is a Python web framework and asynchronous networking library. It is designed for handling asynchronous processes and is commonly used for building web applications. Python, Web Framework, Asynchronous, Networking Computer & Information Sciences Application Development Documentation, Uses, and more
totalview Anvil TotalView is a comprehensive parallel debugging and performance analysis solution. It provides developers with advanced tools to effectively find and fix bugs, optimize code, and improve application performance for HPC, big data, and machine learning applications. Debugging, Performance Analysis, Hpc, Big Data, Machine Learning Infrastructure & Instrumentation, Engineering & Technology Development & Optimization Tools Documentation, Uses, and more
tqdm ACES tqdm is a fast, extensible progress bar for loops and pipelines in Python. It provides a visual and text-based progress bar to indicate the progress of iterations. Progress Bar, Python, Data Visualization, Productivity Tool Computer & Information Sciences Package Documentation, Uses, and more
transdecoder ACES TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or other full-length RNA-Seq datasets. It combines homology searches with open reading frame (ORF) detection to predict likely coding regions. Bioinformatics, Computational Biology, Transcriptomics, Protein Prediction Genetics, Biological Sciences Tool Documentation, Uses, and more
transformers ACES Transformers is a state-of-the-art natural language processing library, which provides thousands of pre-trained models for various NLP tasks. It offers an easy-to-use API for training and fine-tuning models on custom datasets. Nlp, Deep Learning, Machine Learning Artificial Intelligence & Intelligent Systems, Computer & Information Sciences Machine Learning Documentation, Uses, and more
transrate ACES Transrate is a software tool for de novo transcriptome assembly quality analysis. It assesses the quality of de novo transcriptome assemblies, identifies problem areas, and suggests improvements. Transrate helps in evaluating the accuracy and completeness of transcriptome assemblies. Transcriptome Assembly, Quality Assessment, Bioinformatics Genetics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
trilinos ACES
Stampede3		 Trilinos is an open-source collection of solvers and libraries for the solution of large-scale, complex multi-physics engineering and scientific problems. It provides a framework for the development of parallel linear and nonlinear algebraic solvers, preconditioners, and other scientific computing capabilities. Scientific Computing, Numerical Analysis, Parallel Computing, Computational Physics Biology, Engineering & Technology Library Documentation, Uses, and more
trim_galore ACES The TRIM (Thermal Radiation Interaction Model) software is used in computational fluid dynamics (CFD) simulations to accurately model thermal radiation exchanges within fluid flows. TRIM helps in studying the impact of thermal radiation on heat transfer and temperature distribution in various engineering applications. Biology Documentation, Uses, and more
trimmomatic ACES
Anvil
Bridges-2
Delta		 Trimmomatic is a flexible and efficient tool for trimming raw next-generation sequencing data. It provides several trimming modes and options to cater to different sequencing platforms and quality control requirements. Ngs Data Processing, Quality Control, Bioinformatics Biology, Biological Sciences Tool Documentation, Uses, and more
trinity ACES
Bridges-2		 Trinity is a de novo RNA-Seq assembly software that reconstructs transcriptomes from short RNA-Seq reads using a novel method for de novo transcriptome assembly from RNA-Seq data. It combines efficient full-length transcript assembly and full-length isoform reconstruction to result in high-sensitivity and high-accuracy transcriptomes. Bioinformatics, Computational Biology, Transcriptomics, RNA-Seq, De Novo Assembly Biological Sciences Bioinformatics Tool Documentation, Uses, and more
trinotate ACES Trinotate is a comprehensive annotation suite designed for functional annotation of de novo assembled transcriptomes, particularly for non-model organisms. It provides tools for sequence homology searches, protein domain predictions, functional annotation, and visualization of annotation results. Bioinformatics, Computational Biology, Transcriptomics, Functional Annotation Bioinformatics, Biological Sciences Functional Annotation Tool Documentation, Uses, and more
triton ACES Documentation, Uses, and more
trnascan-se Bridges-2 tRNAscan-SE is a program for the identification of transfer RNA (tRNA) genes in genomic sequence. It combines search techniques for computational RNA gene detection and a homology search for analyzing secondary structure features of candidate genes. tRNAscan-SE is widely used for the prediction of tRNA genes in both prokaryotic and eukaryotic genomes. Bioinformatics, Genomics, Computational Biology, Sequence Analysis Genomics, Biological Sciences Bioinformatics Tool Documentation, Uses, and more
tuning analysis utilities Stampede3 Documentation, Uses, and more
turm ACES Documentation, Uses, and more
twisted ACES Twisted is an event-driven networking engine written in Python. It supports multiple network protocols, including TCP, UDP, SSL/TLS, HTTP, IMAP, SSH, and more. Twisted is designed for scalability and to easily build networked applications. Networking, Event-Driven, Python Computer & Information Sciences Library Documentation, Uses, and more
typing-extensions ACES The typing-extensions module in Python provides additional type hinting support for Python 3.7 and later. It includes type hinting classes that were proposed for inclusion in the main 'typing' module but are specifically intended for external use. Python, Type Hinting, Typing Module, Type Annotations Computer & Information Sciences Python Library Documentation, Uses, and more
ucc ACES
Stampede3		 UCC (Universal Chemistry Converter) is a versatile software tool designed to convert chemical structures from one format to another. It supports a wide range of chemical structure file formats, making it an essential utility for chemists and researchers working with molecular structures. Chemical Software, Chemical Structure Converter, Chemistry Chemical Sciences, Natural Sciences Conversion Tool Documentation, Uses, and more
ucc-cuda ACES ucc-cuda is an open-source compiler that integrates Unified Code Coverage Analysis (UCC) with the CUDA programming model used for parallel computing on NVIDIA GPUs. It allows developers to perform code coverage analysis on CUDA programs to identify unexecuted code paths and improve code quality. Compiler, Cuda, Code Coverage Analysis, Parallel Computing Computer & Information Sciences, Engineering & Technology Development Tool Documentation, Uses, and more
ucx ACES
Anvil
Bridges-2
Expanse
KyRIC
Ookami
Stampede3		 Unified Communication X (UCX) is a flexible and high-performance communication library for applications and libraries. Communication Library, High-Performance Computing, Distributed Computing Engineering & Technology Communication Library Documentation, Uses, and more
ucx-cuda ACES ucx-cuda is a CUDA-enabled version of the Unified Communication X (UCX) framework, designed to provide high-performance communication primitives for parallel programming models on NVIDIA GPUs. Ucx, Cuda, Gpu-Accelerated Computing, Communication Primitives Computer & Information Sciences Communication Framework Documentation, Uses, and more
udunits ACES
Anvil
Stampede3		 UDUNITS supports conversion of unit specifications between formatted, human-readable strings and machine-friendly structures. In addition, UDUNITS defines functions that can be used to identify whether pairs of units are conformable for mathematical operations, to convert numerical values from one unit to another, and to generate strings representing the units of quantities. Units, Unit Conversion, Udunits Other Natural Sciences Conversion Tool Documentation, Uses, and more
umap-learn ACES Documentation, Uses, and more
umoci ACES Documentation, Uses, and more
uni-core ACES Documentation, Uses, and more
unicycler ACES Unicycler is a hybrid assembly pipeline for bacterial genomes. It can assemble both short and long reads using a combination of de novo assembly and polishing steps. Bioinformatics, Genomics, Assembly, Bacteria Genetics, Biological Sciences Sequence Assembly Documentation, Uses, and more
unifrac ACES Documentation, Uses, and more
unzip ACES Unzip is a popular open-source file extraction utility for extracting compressed files in various formats. It is commonly used to extract files from ZIP archives, but it also supports other archive formats. File Extraction, Compression, Utility Computer & Information Sciences File Extraction Documentation, Uses, and more
utf8proc ACES utf8proc is a small, clean C library that provides Unicode normalization, case-folding, and other operations for data in the UTF-8 encoding. It is written with performance and robustness in mind. Unicode, Utf-8, Normalization, Case Folding, Character Manipulation Computer & Information Sciences Data Processing Documentation, Uses, and more
util-linux ACES
KyRIC
Ookami		 Util-linux is a suite of essential utilities for any Linux system. It contains various programs for handling basic system functionalities, such as mounting drives, managing partitions, controlling system processes, monitoring system performance, and more. Linux, System Utilities, Command Line Tools Computer & Information Sciences Operating System Tools Documentation, Uses, and more
util-linux-uuid Anvil
DeltaAI
KyRIC		 util-linux-uuid is a command-line utility that allows users to generate universally unique identifiers (UUIDs) in various formats. UUIDs are 128-bit numbers used as identifiers for entities in computer systems with a high probability of being unique. Uuid Generator, Command-Line Utility, Unique Identifier, Data Management Computer Science, Computer & Information Sciences Command-Line Tool Documentation, Uses, and more
util-macros DeltaAI
KyRIC		 util-macros is a collection of utility macros for C programmers to aid in simplifying common tasks and improving code readability. These macros are designed to enhance the efficiency and maintainability of C code by providing useful functions and utilities. Programming, Development, C Programming, Utility Macros Computer Science, Computer & Information Sciences Utility Documentation, Uses, and more
valgrind ACES
Anvil
Ookami		 Valgrind is a programming tool for memory debugging, memory leak detection, and profiling. It can also be used for cache and thread error detection. Debugging, Profiling, Development Tool Computer & Information Sciences Programming Tool Documentation, Uses, and more
valgrind memory debugger KyRIC Documentation, Uses, and more
valgrind4hpc Delta
DeltaAI		 Valgrind4HPC is a performance analysis tool suite specifically designed for high-performance computing (HPC) environments. It provides a comprehensive set of tools for profiling, memory debugging, and thread analysis to help optimize and improve the performance of parallel and distributed applications on HPC systems. Performance Analysis, Hpc Environments, Profiling, Memory Debugging, Thread Analysis, Parallel Programming Computer & Information Sciences, Engineering & Technology Tool Documentation, Uses, and more
vasp ACES
Anvil
Bridges-2
Stampede3		 VASP (Vienna Ab-initio Simulation Package) is a computer program for atomic scale materials modelling, e.g. electronic structure calculations and quantum-mechanical molecular dynamics, from first principles. Materials Modelling, Electronic Structure Calculations, Quantum-Mechanical Simulations, Dft Calculations, Molecular Dynamics Chemistry, Physical Sciences, Engineering & Technology Package Documentation, Uses, and more
vcf2maf Bridges-2 vcf2maf is a tool that annotates variants in VCF files with Variant Effect Predictor (VEP) and converts them to Mutation Annotation Format (MAF). It helps in interpreting and analyzing genetic variants in the context of known genomic annotations. Bioinformatics, Variant Annotation, Genetic Variants, Annotation Tool Biological Sciences Bioinformatics Tool Documentation, Uses, and more
vcflib ACES Documentation, Uses, and more
vcftools ACES
Anvil
Bridges-2
Delta		 VCFtools is a software package for manipulating and analyzing genetic variation data stored in Variant Call Format (VCF) files. It provides a wide range of tools for quality control, filtering, summarization, and other analyses of genetic variants. Genetic Variation Analysis, Variant Call Format (Vcf), Population Genetics, Bioinformatics Biological Sciences Data Analysis Tool Documentation, Uses, and more
velvet ACES Velvet is a de novo genomic assembler specially designed for short read sequencing technologies, such as those produced by the Illumina platform. It is efficient in handling large volumes of data and is widely used for assembling genomes, transcriptomes, and metagenomes. Genomics, Bioinformatics, Sequencing, Assembly Biological Sciences Bioinformatics Tool Documentation, Uses, and more
vesta ACES VESTA is a 3D visualization software for structural models, volumetric data, and crystal structures. It allows users to manipulate and analyze complex molecular and crystal structures with a range of visualization options. 3D Visualization, Crystallography, Molecular Modeling, Structural Analysis Chemical Sciences Scientific Software Documentation, Uses, and more
virtualenv ACES virtualenv is a tool used to create isolated Python environments. These environments can have their own installation directories and can be configured with different versions of Python and packages without affecting the global Python installation on the system. Python, Virtual Environment, Package Management Informatics, Analytics & Information Science, Computer & Information Sciences Environment/Setup Tool Documentation, Uses, and more
virtualgl ACES VirtualGL is an open-source toolkit that enables the 3D acceleration of applications that are running on a remote server. It redirects the 3D rendering commands from a Unix/Linux OpenGL application onto a server-side GPU and converts the rendered 3D images into a video stream that is sent to the client-side for display using a high-speed network connection. Remote Rendering, Gpu Acceleration, Opengl Applications, Network Streaming Computer & Information Sciences Graphics Software Documentation, Uses, and more
visidata Bridges-2 VisiData is a fast, interactive multitool for tabular data. It combines the clarity of a spreadsheet, the efficiency of the terminal, and the power of Python, into a lightweight utility which can handle millions of rows with ease. Data Manipulation, Visualization, Python, Data Analysis Computer & Information Sciences Utility Software Documentation, Uses, and more
visit Anvil
Bridges-2
Delta
Ookami
Stampede3		 Visit is an open-source interactive parallel visualization and graphical analysis tool. It is designed to handle very large data set visualization and enable users to visualize and analyze data from a variety of sources. Visualization, Data Analysis, Scientific Computing Informatics, Analytics & Information Science, Computer & Information Sciences Visualization Software Documentation, Uses, and more
visual studio code Anvil Documentation, Uses, and more
vlc player Anvil Documentation, Uses, and more
vmd ACES
Anvil
Bridges-2
Expanse
Ookami		 Visual Molecular Dynamics (VMD) is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting. Molecular Visualization, Molecular Dynamics, Structural Biology Biophysics, Biochemistry & Molecular Biology, Biological Sciences Molecular Visualization Tool Documentation, Uses, and more
vmd cli Delta Documentation, Uses, and more
vmtouch DeltaAI Documentation, Uses, and more
voro++ ACES
Ookami		 Voro++ is an open-source software library for the computation of the Voronoi diagram, a partitioning of space into a set of polygons based on the distance to a specified set of points. It provides a variety of algorithms for constructing Voronoi diagrams in both two and three dimensions. Voronoi Diagram, Computational Geometry, Open-Source Mathematics Library Documentation, Uses, and more
vpl KyRIC VPL (Visual Programming Language) is a software tool that allows users to create programs by manipulating graphical elements rather than by specifying them textually. It provides a visual interface for programming tasks, making it easier for beginners to understand programming concepts and create functioning code. Visual Programming, Beginner-Friendly, Graphical Interface Computer & Information Sciences Language Programming Documentation, Uses, and more
vscode ACES A popular, extensible text editor from Microsoft Documentation, Uses, and more
vsearch ACES VSEARCH is a versatile open-source tool for metagenomics and sequence analysis. It supports DNA and RNA sequence analysis, clustering, dereplication, chimera detection, pairwise alignment, searching, and filtering. Metagenomics, Sequence Analysis, Bioinformatics Bioinformatics, Biological Sciences Sequence Analysis Tool Documentation, Uses, and more
vtk ACES
Anvil
Delta
Stampede3		 The Visualization Toolkit (VTK) is an open-source software system for 3D computer graphics, image processing, and visualization used by thousands of researchers and developers around the world. VTK offers a wide range of functionality for tasks such as scientific visualization, medical imaging, computational fluid dynamics, and more. 3D Computer Graphics, Image Processing, Scientific Visualization, Medical Imaging, Computational Fluid Dynamics Physical Sciences Visualization Documentation, Uses, and more
vtune ACES
KyRIC
Stampede3		 VTune Profiler is a performance profiling tool for optimizing application performance on Intel architecture. It provides deep insights to help you understand and improve performance and power characteristics of your application. Performance Optimization, Profiling, Intel Architecture Computer & Information Sciences Profiling Tool Documentation, Uses, and more
vulkansdk ACES The Khronos Vulkan API is an explicit, low-overhead, cross-platform graphics and compute API. Documentation, Uses, and more
wandb ACES Documentation, Uses, and more
wannier90 Anvil Wannier90 is a tool used for the computation of maximally-localized Wannier functions, which are spatially compact and localized functions that provide a natural description of the electronic structure of a solid. These functions are often used in condensed matter physics calculations to study the electronic properties of materials. Computational Chemistry, Solid State Physics, Electronic Structure, Materials Science Condensed Matter Physics, Physical Sciences Library Documentation, Uses, and more
wayland ACES Wayland is a communication protocol that specifies the communication between a display server and its clients, as well as a reference implementation of the protocol in the C programming language. Display Server, Communication Protocol, Graphics Rendering Computer & Information Sciences Communication Protocol Implementation Documentation, Uses, and more
waylandpp ACES waylandpp is a C++ binding library for Wayland, which is a protocol for a compositor to talk to its clients. Wayland, C++, Binding Library Computer & Information Sciences Programming Interface Documentation, Uses, and more
webkitgtk+ ACES WebKitGTK+ is an open-source web browser engine. It is a GTK+ port of the WebKit engine. It offers a framework for rendering web content in applications built with GTK+. Web Browser Engine, Gtk+ Port, Open-Source, Web Content Rendering Computer & Information Sciences Rendering Engine Documentation, Uses, and more
webproxy ACES WebProxy is a tool that allows users to access websites anonymously by hiding their IP address. It acts as an intermediary between the user's device and the internet, masking the user's IP address and encrypting their internet traffic for increased privacy and security. Proxy Server, Internet Privacy, Security, Anonymity Computer & Information Sciences Tool Documentation, Uses, and more
westpa Delta The Weighted Ensemble Simulation Toolkit for the Analysis of Rare Events (WESTPA) is an open-source software package designed to facilitate the description and analysis of rare events in complex systems. It employs a weighted ensemble-based strategy to efficiently sample and explore the configuration space of a system, particularly when traditional molecular dynamics simulations may struggle to capture rare events. Molecular Dynamics, Simulation Analysis, Rare Events, Complex Systems, Open-Source Biophysics, Biological Sciences Computational Software Documentation, Uses, and more
wfa2 ACES Documentation, Uses, and more
wget ACES GNU Wget is a utility for non-interactive download of files from the Web. It supports HTTP, HTTPS, and FTP protocols, as well as retrieval through HTTP proxies. Download Manager, Command-Line Tool Computer & Information Sciences System Tool Documentation, Uses, and more
which DeltaAI Documentation, Uses, and more
wpebackend-fdo ACES wpebackend-fdo is a software project that provides a backend implementation for WebKit's WPE WebKit using a Flatpak distributed runtime for sandboxing. Software, Sandboxing, Integration, Performance Optimization Computer Science, Computer & Information Sciences Backend Implementation Documentation, Uses, and more
wps ACES WPS Office is a comprehensive office suite that includes Writer, Presentation, and Spreadsheets. It provides a familiar interface and full compatibility with Microsoft Office file formats. Office Suite, Word Processing, Presentation, Spreadsheets, Pdf Editing Other Office Suite Documentation, Uses, and more
wrf ACES The Weather Research and Forecasting (WRF) model is a next-generation mesoscale numerical weather prediction system designed to serve both atmospheric research and operational forecasting needs. It features multiple options for parameterizations, data assimilation techniques, and model domains, allowing for simulations at various spatial and temporal scales. Weather Forecasting, Numerical Modeling, Atmospheric Science Earth & Environmental Sciences Meteorological Modeling Software Documentation, Uses, and more
wxpython ACES wxPython is a cross-platform GUI toolkit for the Python programming language. It allows Python programmers to create functional and native-looking user interfaces for their applications. Gui Toolkit, Cross-Platform, Python Computer & Information Sciences Library Documentation, Uses, and more
wxwidgets ACES wxWidgets is a C++ library that lets developers create applications for Windows, macOS, Linux and other platforms with a single code base. It is a mature and comprehensive framework that allows for native user interfaces with a wide range of widgets. Gui Library, Cross-Platform Development, Native User Interfaces, Open-Source Software Engineering & Technology Library/Framework Documentation, Uses, and more
x11 ACES X11 is a windowing system for bitmap displays, common on Unix-like operating systems and desktop environments. It provides the basic framework for building GUI applications on these systems, handling graphical elements such as windows, menus, and user input. Windowing System, Gui Applications, Unix-Like Operating Systems Computer & Information Sciences System Software Documentation, Uses, and more
x264 ACES x264 is a free and open-source software library and a command-line utility for encoding video streams into the H.264/MPEG-4 AVC format. Video Encoding, H.264/Mpeg-4 Avc, Open-Source Engineering & Technology Video Encoding Documentation, Uses, and more
x265 ACES x265 is a free and open-source software library and application for encoding video streams into the H.265/MPEG-H HEVC (High Efficiency Video Coding) format. It is widely used for efficient video compression and playback on various platforms. Video Encoding, Compression, Hevc Computer & Information Sciences Library & Application Documentation, Uses, and more
xalt Anvil
Jetstream2
Stampede3		 XALT (XALT Accounting for Loadable and Transient Objects) is a tool designed to track the detailed usage of HPC systems by monitoring library dependencies and executables during job executions. It captures information on modules, compilers, libraries, and executables used in each job, providing detailed insights into the software stack and usage patterns on the HPC system. Hpc, Monitoring Engineering & Technology Performance Tracking Documentation, Uses, and more
xarray ACES Xarray is an open source Python library that provides data structures and functions for working with labelled multidimensional arrays. It aims to bring the labeled data power of pandas to the physical sciences, by providing N-dimensional variants of the core pandas data structures. Python Library, Data Analysis, Scientific Computing, Multidimensional Arrays Other Natural Sciences Library Documentation, Uses, and more
xcb-proto Anvil
DeltaAI		 Documentation, Uses, and more
xcb-util-image Anvil The xcb-util-image library provides a number of functions used for manipulating and creating XCB format images, including loading and saving images to disk in various formats. Image Processing, Xcb, Library Computer & Information Sciences Library Documentation, Uses, and more
xcb-util-keysyms Anvil The xcb-util-keysyms library provides utility functions for obtaining the keysyms keycode values, as used in the X Window System, as well as common XKB functions. It is part of the X C Bindings (XCB) utility libraries which provide a number of convenience functions and interfaces for usage with XCB. X Window System, Utility Functions, Xcb Computer Science, Computer & Information Sciences Utility Documentation, Uses, and more
xcb-util-renderutil Anvil A set of libraries which provide a convenient API for rendering text with XCB. Xcb, Rendering, Text, Api Computer & Information Sciences Rendering Documentation, Uses, and more
xcb-util-wm Anvil xcb-util-wm is a set of utility functions for interfacing with the X Window Manager (WM) extension of the XCB library. It provides a number of functions that are useful to XCB WM clients. X Window System, Window Manager, Xcb Library, Utility Functions Computer & Information Sciences Utility Documentation, Uses, and more
xclock Delta xclock is a simple graphical user interface (GUI) application that displays a digital or analog clock on the user's desktop. It is commonly found on Unix and Unix-like operating systems, serving as a basic utility for users to check the current time visually. Clock Utility, Gui Application Other Computer & Information Sciences Desktop Application Documentation, Uses, and more
xdinfo Bridges-2
Expanse		 xdinfo is a Python package which provides information about X-ray diffraction (XD) like functions, atomic scattering, Mueller matrix, XD profiles, and more. It is designed for the analysis and interpretation of X-ray diffraction data in various scientific applications. Python Package, X-Ray Diffraction Analysis, Scientific Data Interpretation Physical Sciences Library Documentation, Uses, and more
xdresourceid Bridges-2 xdResourceID is a tool used for identifying and managing unique resource identifiers within a digital environment. It provides a systematic approach to assigning and tracking identifiers for various digital resources. Resource Management, Digital Environment, Identifier Tracking Engineering & Technology Documentation, Uses, and more
xdusage Bridges-2 xdusage is a tool used for monitoring and analyzing batch job resource utilization on High Performance Computing (HPC) systems. It allows users to track resource usage, such as CPU time, memory, and disk space, for individual jobs or users. Hpc, Resource Monitoring, Batch Job Management, Performance Analysis Infrastructure & Instrumentation, Engineering & Technology Command Line Tool Documentation, Uses, and more
xerces-c Delta Xerces-C is a validating XML parser written in C++. Xml Parser, Validation, C++, Unicode Computer & Information Sciences Library Documentation, Uses, and more
xerces-c++ ACES Xerces-C++ is a validating XML parser written in C++ and released by the Apache Software Foundation. It is a high-performance, feature-rich parser that is widely used for parsing and processing XML documents in a variety of applications. Xml Parser, Data Processing, Software Development Computer & Information Sciences Parser Documentation, Uses, and more
xextproto Anvil
Delta
DeltaAI		 X11 Extension protocols and auxiliary headers Linux, X11, X Window System Computer & Information Sciences Library Documentation, Uses, and more
xeyes Delta Documentation, Uses, and more
xgboost ACES XGBoost is an open-source software library which provides a gradient boosting framework for efficient and high-performance machine learning. Machine Learning, Gradient Boosting, Ensemble Learning Computer & Information Sciences, Artificial Intelligence & Intelligent Systems Library Documentation, Uses, and more
xlsxwriter ACES Documentation, Uses, and more
xml-libxml ACES xml-libxml is a software library for reading, writing, and manipulating XML files. It provides a robust set of tools for parsing and processing XML documents. Xml, Parser, Library, Data Processing Other Computer & Information Sciences, Computer & Information Sciences Data Processing Documentation, Uses, and more
xmltodict ACES Documentation, Uses, and more
xorg-macros ACES The xorg-macros package provides a set of autoconf macros used by X.org software packages for consistent and simplified build procedures across various Unix and Linux systems. Build Tools, Autoconf Macros Computer & Information Sciences Library/Dependency Documentation, Uses, and more
xpmem ACES
DeltaAI
Ookami		 XPMEM is a kernel module that provides a kernel-level interface for sharing memory between processes. Kernel Module, Inter-Process Communication, Memory Sharing Computer Science, Computer & Information Sciences System Software Documentation, Uses, and more
xprop ACES xprop is a utility for retrieving the properties of a window in a X server system. It allows users to query and display properties of a given X server window, which can be useful for debugging and troubleshooting GUI-related issues. X Server, Window Properties, Gui Debugging Computer Science, Computer & Information Sciences System Tool Documentation, Uses, and more
xproto ACES
Anvil
Delta
DeltaAI		 X Window System protocol development files. Software Development, Protocol Development, X Window System Computer & Information Sciences Library Documentation, Uses, and more
xtb ACES Documentation, Uses, and more
xterm DeltaAI Documentation, Uses, and more
xtrans Delta
DeltaAI		 xtrans is a general-purpose transducer-based approach for defining translations between various formats and data representations. It provides a flexible framework for specifying bidirectional transformations between different data structures. Data Transformation, Format Conversion, Transducer-Based Tool Computer & Information Sciences Tool Documentation, Uses, and more
xvfb ACES Xvfb (X virtual framebuffer) is an in-memory display server for Unix-like systems that enable running graphical applications without a display. Display Server, Headless, Virtual Display Computer & Information Sciences Virtual Display Server Documentation, Uses, and more
xxd ACES xxd is a command-line utility on Unix and Unix-like systems for creating a hex dump of a given file or standard input. Hex Dump, Command-Line Utility, Data Conversion Other Computer & Information Sciences Command-Line Tool Documentation, Uses, and more
xxhash ACES Documentation, Uses, and more
xz ACES
Anvil
Delta
DeltaAI
KyRIC		 xz is a free and open-source data compression tool that uses the LZMA compression algorithm. It is designed to be an efficient and high-performance compression utility. Compression, Data Compression, Open-Source Computer & Information Sciences Utility Documentation, Uses, and more
yacs ACES YACS (Yet Another Constraint Solver) is a Python-based constraint satisfaction problem (CSP) solver that allows for the modeling and solving of constraint problems using a high-level interface. Constraint Satisfaction Problem, Csp Solver, Python-Based, Constraint Modeling Computer & Information Sciences Optimization Tool Documentation, Uses, and more
yaml Ookami YAML (YAML Ain't Markup Language) is a human-readable data serialization format that is commonly used for configuration files, data exchange, and structured data representation. It aims to be easily readable by humans and supports various data structures and nested data hierarchies, making it a popular choice for configuration management and data storage. Information Technology Serialization Language Documentation, Uses, and more
yamlcpp Stampede3 Documentation, Uses, and more
yasm ACES
Delta		 Yasm is a complete rewrite of the NASM assembler under the new BSD License. It is designed to have NASM compatibility for NASM's source code usage. Yasm currently supports the x86 and AMD64 instruction sets, accepts NASM and GAS assembler syntaxes, outputs binary, ELF32, ELF64, COFF, Mach-O (32 and 64), RDOFF2, SREC, and Hex formats, and generates source debugging information in STABS, DWARF 2, and CodeView 8 formats. Assembler, Assembly, Development, Programming Engineering & Technology Assembler Documentation, Uses, and more
yaxt ACES YAXT (Yet Another XTabulator) is a Python library for creating publication-ready quantitative tables with an emphasis on simplicity and customization. It provides a straightforward interface for generating tables directly from pandas DataFrames. Python Library, Data Analysis, Table Generation Computer & Information Sciences Library Documentation, Uses, and more
yell ACES Documentation, Uses, and more
z3 ACES Z3 is a high-performance theorem prover being developed at Microsoft Research. Z3 is a state-of-the-art SMT (Satisfiability Modulo Theories) solver used in various applications including software and hardware verification, security, AI and ML, and more. It provides a programming interface for both C and Python. Theorem Prover, Satisfiability Modulo Theories (Smt) Solver, Software Verification, Hardware Verification, Security, Ai, Machine Learning Computer & Information Sciences Theorem Prover Documentation, Uses, and more
zarr ACES Zarr is a Python package providing an implementation of chunked, compressed, N-dimensional arrays which can be stored in memory, on disk, or on cloud storage. It is designed to efficiently store and retrieve large arrays of data while minimizing the use of computational resources. Python Library, Data Storage, Data Management Computer & Information Sciences Library Documentation, Uses, and more
zeromq ACES ZeroMQ is a high-performance asynchronous messaging library that is designed for building distributed and concurrent applications. It provides messaging patterns like pub-sub, request-reply, push-pull, etc., along with sockets and transports for communication between nodes. Messaging, Distributed Computing, Async Computer & Information Sciences Communication Documentation, Uses, and more
zfp ACES zfp is a compressed numerical array library providing high-throughput, low-overhead fixed-rate, fixed-precision encoding and compression of 1D and 2D scientific data. Numerical Array, Compression, Scientific Data Computer & Information Sciences Library Documentation, Uses, and more
zip ACES zip is a compression and file packaging utility for Unix, VMS, DOS, OS/2, Windows 9x/NT/XP, Minix, Atari, Macintosh, Amiga, and Acorn RISC OS. Compression, File Packaging, Utility Other Computer & Information Sciences Utility Documentation, Uses, and more
zlib ACES
Anvil
DeltaAI
KyRIC
Stampede3		 zlib is a software library for data compression that provides functions for file compression and decompression using the DEFLATE compression algorithm. It is widely used in various applications for reducing file size and conserving storage space. Compression, Data Compression, File Compression, Deflate Algorithm Computer & Information Sciences Data Compression Documentation, Uses, and more
zlib-ng Delta
DeltaAI		 Documentation, Uses, and more
zoltan ACES
Bridges-2		 Zoltan is a toolkit for managing parallel memory for dynamic applications in high-performance computing environments. It provides scalable parallel dynamic load-balancing, graph partitioning, and dynamic data restructuring services. Parallel Computing, High-Performance Computing, Dynamic Applications Engineering & Technology Hpc Tools Documentation, Uses, and more
zsh Ookami Zsh is a powerful and customizable UNIX shell with a large set of features aimed at improving user experience and productivity. It is an extended Bourne shell with many improvements, including interactive command line editing, programmable command completion, advanced scripting capabilities, and theme support. Unix Shell, Customizable Shell, Command Line Interface Computer & Information Sciences Command Line Interface Documentation, Uses, and more
zstd ACES
DeltaAI
Expanse
KyRIC		 Zstandard (or zstd) is a fast data compression algorithm developed by Facebook. It is designed to provide high compression ratios with very low latency, making it suitable for real-time compression/decompression scenarios. Zstandard offers a wide range of compression levels, from very fast to very strong, allowing users to balance between speed and compression ratio based on their requirements. Compression, Data Compression, Algorithm Computer Science, Computer & Information Sciences Compression Algorithm Documentation, Uses, and more
Last Updated: October 17, 2025 at 11:40:07 PM Eastern Daylight Time