The Gurobi Optimizer was designed from the ground up to be the fastest, most powerful solver available for your LP, QP, QCP, and MIP (MILP, MIQP, and MIQCP) problems.

The Hardware Locality (hwloc) software project.

Intel oneAPI MKL.

The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.

The Open Fabrics Interfaces (OFI) is a framework focused on exporting fabric communication services to applications.

GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.

Generic PCI access library.

Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.

LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.

MATLAB (MATrix LABoratory) is a multi-paradigm numerical computing environment and fourth-generation programming language. A proprietary programming language developed by MathWorks, MATLAB allows matrix manipulations, plotting of functions and data, implementation of algorithms, creation of user interfaces, and interfacing with programs written in other languages, including C, C++, C#, Java, Fortran and Python.

The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.

ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines

NUMA support for Linux

Omni-Path Performance Scaled Messaging 2 (PSM2) library

An open source Message Passing Interface implementation.

OpenSSH is the premier connectivity tool for remote login with the SSH protocol. It encrypts all traffic to eliminate eavesdropping, connection hijacking, and other attacks. In addition, OpenSSH provides a large suite of secure tunneling capabilities, several authentication methods, and sophisticated configuration options.

OpenSSL is an open source project that provides 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.

The popt library parses command line options.

The Python programming language.

An open source utility that provides fast incremental file transfer.

This is a set of autoconf macros used by the configure.ac scripts in other Xorg modular packages, and is needed to generate new versions of their configure scripts with autoconf.

The Vienna Ab initio Simulation Package (VASP) is a computer program for atomic scale materials modelling, e.g. electronic structure calculations and quantum-mechanical molecular dynamics, from first principles.

xxHash is an Extremely fast Hash algorithm, running at RAM speed limits. It successfully completes the SMHasher test suite which evaluates collision, dispersion and randomness qualities of hash functions. Code is highly portable, and hashes are identical on all platforms (little / big endian).

XZ Utils is free general-purpose data compression software with high compression ratio. XZ Utils were written for POSIX-like systems, but also work on some not-so-POSIX systems. XZ Utils are the successor to LZMA Utils.

A free, general-purpose, legally unencumbered lossless data-compression library.

Zstandard, or zstd as short version, is a fast lossless compression algorithm, targeting real-time compression scenarios at zlib-level and better compression ratios.

The Abaqus Unified FEA product suite offers powerful and complete solutions for both routine and sophisticated engineering problems covering a vast spectrum of industrial applications. In the automotive industry engineering work groups are able to consider full vehicle loads, dynamic vibration, multibody systems, impact/crash, nonlinear static, thermal coupling, and acoustic-structural coupling using a common model data structure and integrated solver technology. Best-in-class companies are taking advantage of Abaqus Unified FEA to consolidate their processes and tools, reduce costs and inefficiencies, and gain a competitive advantage.

Gaussian is a computer program for computational chemistry

STAR-CCM+ (Computational Continuum Mechanics) CFD solver.

Tecplot 360 is a Computational Fluid Dynamics (CFD) and numerical simulation software package used in post-processing simulation results. It is also used in chemistry applications to visualize molecule structure by post-processing charge density data.

Intel OneAPI compilers

The NVIDIA HPC SDK is a comprehensive suite of compilers, libraries and tools essential to maximizing developer productivity and the performance and portability of HPC applications. The NVIDIA HPC SDK C, C+, and Fortran compilers support GPU acceleration of HPC modeling and simulation applications with standard C+ and Fortran, OpenACC directives, and CUDA. GPU-accelerated math libraries maximize performance on common HPC algorithms, and optimized communications libraries enable standards-based multi-GPU and scalable systems programming. Performance profiling and debugging tools simplify porting and optimization of HPC applications.

Intel oneAPI CCL.

Intel oneAPI DAL.

Intel oneAPI DNN.

Intel oneAPI IPP.

Intel oneAPI IPP Crypto.

Intel oneAPI MKL.

Intel oneAPI MPI.

Intel oneAPI TBB.

Intel oneAPI VPL.

RDMA core userspace libraries and daemons

ABINIT is a package whose main program allows one to find the total energy, charge density and electronic structure of systems made of electrons and nuclei (molecules and periodic solids) within Density Functional Theory (DFT), using pseudopotentials and a planewave or wavelet basis.

The Adaptable IO System (ADIOS) provides a simple, flexible way for scientists to describe the data in their code that may need to be written, read, or processed outside of the running simulation.

The Adaptable Input Output System version 2, developed in the Exascale Computing Program

The Advanced Linux Sound Architecture (ALSA) provides audio and MIDI functionality to the Linux operating system. alsa-lib contains the user space library that developers compile ALSA applications against.

Apache Ant is a Java library and command-line tool whose mission is to drive processes described in build files as targets and extension points dependent upon each other

ANTLR (ANother Tool for Language Recognition) is a powerful parser generator for reading, processing, executing, or translating structured text or binary files. It's widely used to build languages, tools, and frameworks. From a grammar, ANTLR generates a parser that can build and walk parse trees.

ANTs extracts information from complex datasets that include imaging. Paired with ANTsR (answer), ANTs is useful for managing, interpreting and visualizing multidimensional data. ANTs is popularly considered a state-of-the-art medical image registration and segmentation toolkit. ANTs depends on the Insight ToolKit (ITK), a widely used medical image processing library to which ANTs developers contribute.

Armadillo is a high quality linear algebra library (matrix maths) for the C++ language, aiming towards a good balance between speed and ease of use.

ARPACK-NG is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems.

A presentable text document format for writing articles, UNIX man pages and other small to medium sized documents.

Open Asset Import Library (Assimp) is a portable Open Source library to import various well-known 3D model formats in a uniform manner.

ATK provides the set of accessibility interfaces that are implemented by other toolkits and applications. Using the ATK interfaces, accessibility tools have full access to view and control running applications.

A Projector Augmented Wave (PAW) code for generating atom-centered functions.

The At-Spi2 Atk package contains a library that bridges ATK to At-Spi2 D-Bus service.

The At-Spi2 Core package provides a Service Provider Interface for the Assistive Technologies available on the GNOME platform and a library against which applications can be linked.

AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences

The GNU Autoconf Archive is a collection of more than 500 macros for GNU Autoconf.

AutoDock Vina is an open-source program for doing molecular docking

C++ API & command-line toolkit for working with BAM data.

BART: Toolbox for Computational Magnetic Resonance Imaging

Bazel is an open-source build and test tool similar to Make, Maven, and Gradle. It uses a human-readable, high-level build language. Bazel supports projects in multiple languages and builds outputs for multiple platforms. Bazel supports large codebases across multiple repositories, and large numbers of users.

BCFtools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.

bdftopcf is a font compiler for the X server and font server. Fonts in Portable Compiled Format can be read by any architecture, although the file is structured to allow one particular architecture to read them directly without reformatting. This allows fast reading on the appropriate machine, but the files are still portable (but read more slowly) on other machines.

The Boehm-Demers-Weiser conservative garbage collector is a garbage collecting replacement for C malloc or C++ new.

BEAST is a cross-platform program for Bayesian analysis of molecular sequences using MCMC.

Collectively, the bedtools utilities are a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic: that is, set theory on the genome.

Oracle Berkeley DB

GNU binutils, which contain the linker, assembler, objdump and others

A tool to map bisulfite converted sequence reads and determine cytosine methylation states

Basic Local Alignment Search Tool.

BLAT (BLAST-like alignment tool) is a pairwise sequence alignment algorithm.

Boost provides free peer-reviewed portable C++ source libraries, emphasizing libraries that work well with the C++ Standard Library.

Bowtie is an ultrafast, memory-efficient short read aligner for short DNA sequences (reads) from next-gen sequencers.

Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences

BRAKER is a pipeline for unsupervised RNA-Seq-based genome annotation that combines the advantages of GeneMark-ET and AUGUSTUS

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.

bzip2 is a freely available, patent free high-quality data compressor. It typically compresses files to within 10% to 15% of the best available techniques (the PPM family of statistical compressors), whilst being around twice as fast at compression and six times faster at decompression.

Cairo is a 2D graphics library with support for multiple output devices.

c-ares: A C library for asynchronous DNS requests

Cbc (Coin-or branch and cut) is an open-source mixed integer linear programming solver written in C++. It can be used as a callable library or using a stand-alone executable.

Blosc, an extremely fast, multi-threaded, meta-compressor library

CDO is a collection of command line Operators to manipulate and analyse Climate and NWP model Data.

CFITSIO is a library of C and Fortran subroutines for reading and writing data files in FITS (Flexible Image Transport System) data format.

The Computational Geometry Algorithms Library (CGAL) is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry. CGAL is used in various areas needing geometric computation, such as geographic information systems, computer aided design, molecular biology, medical imaging, computer graphics, and robotics.

The COIN-OR Cut Generation Library (Cgl) is a collection of cut generators that can be used with other COIN-OR packages that make use of cuts, such as, among others, the linear solver Clp or the mixed integer linear programming solvers Cbc or BCP. Cgl uses the abstract class OsiSolverInterface (see Osi) to use or communicate with a solver. It does not directly call a solver.

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. Test results are reportable in the following: Subunit, TAP, XML, and a generic logging format.

cisTEM is user-friendly software to process cryo-EM images of macromolecular complexes and obtain high-resolution 3D reconstructions from them.

CLHEP is a C++ Class Library for High Energy Physics.

Clp (Coin-or linear programming) is an open-source linear programming solver written in C++.

Code base for the U.S. EPA's Community Multiscale Air Quality Model (CMAQ).

CmdStan is the command line interface to Stan.

A tool for CNV discovery and genotyping from depth-of-coverage by mapped reads.

CoinUtils is an open-source collection of classes and helper functions that are generally useful to multiple COIN-OR projects.

The GNU Core Utilities are the basic file, shell and text manipulation utilities of the GNU operating system. These are the core utilities which are expected to exist on every operating system.

CP2K is a quantum chemistry and solid state physics software package that can perform atomistic simulations of solid state, liquid, molecular, periodic, material, crystal, and biological systems

GNU cpio copies files into or out of a cpio or tar archive and the file system. The archive can be another file on the disk, a magnetic tape, or a pipe.

C++ binding for 0MQ

Fast and accurate defocus estimation from electron micrographs.

CUB is a C++ header library of cooperative threadblock primitives and other utilities for CUDA kernel programming.

CUDA is a parallel computing platform and programming model invented by NVIDIA. It enables dramatic increases in computing performance by harnessing the power of the graphics processing unit (GPU).

NVIDIA cuDNN is a GPU-accelerated library of primitives for deep neural networks

Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-Seq samples.

cURL is an open source command line tool and library for transferring data with URL syntax

A C interface to the ZMQ library

X Damage Extension.

Darshan (runtime) is a scalable HPC I/O characterization tool designed to capture an accurate picture of application I/O behavior, including properties such as patterns of access within files, with minimum overhead. DarshanRuntime package should be installed on systems where you intend to instrument MPI applications.

Darshan (util) is collection of tools for parsing and summarizing log files produced by Darshan (runtime) instrumentation. This package is typically installed on systems (front-end) where you intend to analyze log files produced by Darshan (runtime).

High-performance file management over WebDAV/HTTP.

D-Bus is a message bus system, a simple way for applications to talk to one another. D-Bus supplies both a system daemon (for events such new hardware device printer queue ) and a per-user-login-session daemon (for general IPC needs among user applications). Also, the message bus is built on top of a general one-to-one message passing framework, which can be used by any two applications to communicate directly (without going through the message bus daemon).

DICOM to NIfTI converter

DIAMOND is a sequence aligner for protein and translated DNA searches, designed for high performance analysis of big sequence data.

Command line utilities for creating, modifying, dumping and validating files of DICOM attributes, and conversion of proprietary image formats to DICOM. Can handle older ACR/NEMA format data, and some proprietary versions of that such as SPI.

Docbook DTD XML files.

DocBook XSLT 1.0 Stylesheets.

This project (double-conversion) provides binary-decimal and decimal-binary routines for IEEE doubles.

Doxygen is the de facto standard tool for generating documentation from annotated C++ sources, but it also supports other popular programming languages such as C, Objective-C, C#, PHP, Java, Python, IDL (Corba, Microsoft, and UNO/OpenOffice flavors), Fortran, VHDL, Tcl, and to some extent D..

Double precision SIMD-oriented Fast Mersenne Twister

ecCodes is a package developed by ECMWF for processing meteorological data in GRIB (1/2), BUFR (3/4) and GTS header formats.

Eigen is a C++ template library for linear algebra matrices, vectors, numerical solvers, and related algorithms.

elfutils is a collection of various binary tools such as eu-objdump, eu-readelf, and other utilities that allow you to inspect and manipulate ELF files. Refer to Table 5.Tools Included in elfutils for Red Hat Developer for a complete list of binary tools that are distributed with the Red Hat Developer Toolset version of elfutils.

The Earth System Modeling Framework (ESMF) is high-performance, flexible software infrastructure for building and coupling weather, climate, and related Earth science applications. The ESMF defines an architecture for composing complex, coupled modeling systems and includes data structures and utilities for developing individual models.

Pairwise sequence alignment of DNA and proteins

Expat is an XML parser library written in C.

A quality control tool for high throughput sequence data.

The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.

FFmpeg is a complete, cross-platform solution to record, convert and stream audio and video.

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.

X Fixes Extension.

Encoder/decoder for the Free Lossless Audio Codec

Memory Efficient Serialization Library

Flex is a tool for generating scanners.

FLTK (pronounced 'fulltick') is a cross-platform C++ GUI toolkit for UNIX/Linux (X11), Microsoft Windows, and MacOS X. FLTK provides modern GUI functionality without the bloat and supports 3D graphics via OpenGL and its built-in GLUT emulation.

Fontconfig is a library for configuring/customizing font access

X Fonts Extension.

X.Org font package creation/installation utilities and fonts.

FOX is a C++ based Toolkit for developing Graphical User Interfaces easily and effectively. It offers a wide, and growing, collection of Controls, and provides state of the art facilities such as drag and drop, selection, as well as OpenGL widgets for 3D graphical manipulation. FOX also implements icons, images, and user-convenience features such as status line help, and tooltips. Tooltips may even be used for 3D objects!

FreeGLUT is a free-software/open-source alternative to the OpenGL Utility Toolkit (GLUT) library

FreeType is a freely available software library to render fonts. It is written in C, designed to be small, efficient, highly customizable, and portable while capable of producing high-quality output (glyph images) of most vector and bitmap font formats.

GNU FriBidi: The Free Implementation of the Unicode Bidirectional Algorithm.

Library to use arbitrary fonts in OpenGL applications.

Header-only library for division via fixed-point multiplication by inverse.

Geant4 data for nuclear shell effects in INCL/ABLA hadronic mode

Geant4 data files for low energy electromagnetic processes.

Geant4 data for nuclides properties

Geant4 data for evaluated particle cross-sections on natural composition of elements

Geant4 Neutron data files with thermal cross sections

Geant4 data for evaluated particle cross-sections on natural composition of elements

Geant4 data for photon evaporation

Geant4 data for shell ionisation cross-sections

Geant4 data files for radio-active decay hadronic processes

Geant4 data for measured optical surface reflectance

Geant4 data from evaluated cross-sections in SAID data-base

Simulations of Preclinical and Clinical Scans in Emission Tomography, Transmission Tomography and Radiation Therapy

A QT/C++ application to convert GATE geometries to STIR format.

Python tools for GATE, see https://github.com/OpenGATE/Gate

Genome Analysis Toolkit Variant Discovery in High-Throughput Sequencing Data

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 by the Open Source Geospatial Foundation. As a library, it presents a single raster abstract data model and vector abstract data model to the calling application for all supported formats. It also comes with a variety of useful command line utilities for data translation and processing.

The Gdk Pixbuf is a toolkit for image loading and pixel buffer manipulation. It is used by GTK+ 2 and GTK+ 3 to load and manipulate images. In the past it was distributed as part of GTK+ 2 but it was split off into a separate package in preparation for the change to GTK+ 3.

Geant4 is a toolkit for the simulation of the passage of particles through matter. Its areas of application include high energy, nuclear and accelerator physics, as well as studies in medical and space science.

A bundle package to hold Geant4 data packages

Gene Prediction in Bacteria, archaea, Metagenomes and Metatranscriptomes. When downloaded this file is named the same for all versions. Spack will search your current directory for the download file. Alternatively, add this file to a mirror so that Spack can find it. For instructions on how to set up a mirror, see https://spack.readthedocs.io/en/latest/mirrors.html

Genrich is a peak-caller for genomic enrichment assays.

GEOS (Geometry Engine - Open Source) is a C++ port of the Java Topology Suite (JTS). As such, it aims to contain the complete functionality of JTS in C++. This includes all the OpenGIS Simple Features for SQL spatial predicate functions and spatial operators, as well as specific JTS enhanced topology functions.

GNU internationalization (i18n) and localization (l10n) library.

The gflags package contains a C++ library that implements commandline flags processing. It includes built-in support for standard types such as string and the ability to define flags in the source file in which they are used. Online documentation available at: https://gflags.github.io/gflags/

An interpreter for the PostScript language and for PDF.

Ghostscript Fonts

The GIFLIB project maintains the giflib service library, which has been pulling images out of GIFs since 1989.

Git is a free and open source distributed version control system designed to handle everything from small to very large projects with speed and efficiency.

GL2PS is a C library providing high quality vector output for any OpenGL application.

The OpenGL Extension Wrangler Library.

GLib provides the core application building blocks for libraries and applications written in C.

The GLPK (GNU Linear Programming Kit) package is intended for solving large-scale linear programming (LP), mixed integer programming (MIP), and other related problems. It is a set of routines written in ANSI C and organized in the form of a callable library.

OpenGL Extension to the X Window System.

GMP is a free library for arbitrary precision arithmetic, operating on signed integers, rational numbers, and floating-point numbers.

GMT (Generic Mapping Tools) is an open source collection of about 80 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 via contour maps to artificially illuminated surfaces and 3D perspective views.

Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was originally created to allow scientists and students to visualize mathematical functions and data interactively, but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by third-party applications like Octave. Gnuplot has been supported and under active development since 1986

GnuTLS is a secure communications library implementing the SSL, TLS and DTLS protocols and technologies around them. It provides a simple C language application programming interface (API) to access the secure communications protocols as well as APIs to parse and write X.509, PKCS #12, OpenPGP and other required structures. It is aimed to be portable and efficient with focus on security and interoperability.

The golang compiler and build environment

The GObject Introspection is used to describe the program APIs and collect them in a uniform, machine readable format.Cairo is a 2D graphics library with support for multiple output

Old C-bootstrapped go to bootstrap real go

Google test framework for C++. Also called gtest.

GNU gperf is a perfect hash function generator. For a given list of strings, it produces a hash function and hash table, in form of C or C++ code, for looking up a value depending on the input string. The hash function is perfect, which means that the hash table has no collisions, and the hash table lookup needs a single string comparison only.

Google's fast malloc/free implementation, especially for multi-threaded applications. Contains tcmalloc, heap-checker, heap-profiler, and cpu-profiler.

Multi-GPU CUDA stress test.

GraphicsMagick is the swiss army knife of image processing.

Graphite is a system that can be used to create 'smart fonts' capable of displaying writing systems with various complex behaviors. A smart font contains not only letter shapes but also additional instructions indicating how to combine and position the letters in complex ways.

Graph Visualization Software

GROMACS (GROningen MAchine for Chemical Simulations) is a molecular dynamics package primarily designed for simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry department of University of Groningen, and is now maintained by contributors in universities and research centers across the world.

The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the GNU General Public License. The library provides a wide range of mathematical routines such as random number generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive test suite.

The GTK+ package contains libraries used for creating graphical user interfaces for applications.

Guile is the GNU Ubiquitous Intelligent Language for Extensions, the official extension language for the GNU operating system.

GNU Gzip is a popular data compression program originally written by Jean-loup Gailly for the GNU project.

The Harfbuzz package contains an OpenType text shaping engine.

HDF4 (also known as HDF) is a library and multi-object file format for storing and managing data between machines.

HDF5 is a data model, library, and file format for storing and managing data. It supports an unlimited variety of datatypes, and is designed for flexible and efficient I/O and for high volume and complex data.

HDF-EOS (Hierarchical Data Format - Earth Observing System) is a self-describing file format based upon HDF for standard data products that are derived from EOS missions. HDF-EOS2 is based upon HDF4.

HDF-EOS (Hierarchical Data Format - Earth Observing System) is a self-describing file format based upon HDF for standard data products that are derived from EOS missions. HDF-EOS5 is based upon HDF5.

A Unified Release of the FTOOLS and XANADU Software Packages.

The HepMC package is an object oriented, C++ event record for High Energy Physics Monte Carlo generators and simulation.

The HepMC package is an object oriented, C++ event record for High Energy Physics Monte Carlo generators and simulation.

HighFive - Header only C++ HDF5 interface

HMMER is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs).

HPL is a software package that solves a (random) dense linear system in double precision (64 bits) arithmetic on distributed-memory computers. It can thus be regarded as a portable as well as freely available implementation of the High Performance Computing Linpack Benchmark.

C library for high-throughput sequencing data formats.

The Hardware Locality (hwloc) software project.

Hypre is a library of high performance preconditioners that features parallel multigrid methods for both structured and unstructured grid problems.

ICU is a mature, widely used set of C/C++ and Java libraries providing Unicode and Globalization support for software applications. ICU4C is the C/C++ interface.

Library for manipulating ID3v1 and ID3v2 tags

OpenEXR ILM Base libraries (high dynamic-range image file format)

ImageMagick is a software suite to create, edit, compose, or convert bitmap images.

The imake build system.

Infernal (INFERence of RNA ALignment) is for searching DNA sequence databases for RNA structure and sequence similarities. It is an implementation of a special case of profile stochastic context-free grammars called covariance models (CMs).

X Input Extension.

Intel oneAPI MKL.

Intel oneAPI TBB.

The Intel X86 Encoder Decoder library for encoding and decoding x86 machine instructions (64- and 32-bit). Also includes libxed-ild, a lightweight library for decoding the length of an instruction.

InterProScan is the software package that allows sequences (protein and nucleic) to be scanned against InterPro's signatures. Signatures are predictive models, provided by several different databases, that make up the InterPro consortium.

intltool is a set of tools to centralize translation of many different file formats using GNU gettext-compatible PO files.

The Insight Toolkit (ITK) is an open-source, cross-platform toolkit for N-dimensional scientific image processing, segmentation, and registration.

JAGS is Just Another Gibbs Sampler. It is a program for analysis of Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC) simulation not wholly unlike BUGS

Library for manipulating JPEG-2000 images

JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA.

jq is a lightweight and flexible command-line JSON processor.

A JSON implementation in C.

JsonCpp is a C++ library that allows manipulating JSON values, including serialization and deserialization to and from strings. It can also preserve existing comment in unserialization/serialization steps, making it a convenient format to store user input files.

The Julia Language: A fresh approach to technical computing

kallisto is a program for quantifying abundances of transcripts from RNA-Seq data.

X Keyboard Extension.

OpenKIM is an online framework for making molecular simulations reliable, reproducible, and portable. Computer implementations of inter-atomic models are archived in OpenKIM, verified for coding integrity, and tested by computing their predictions for a variety of material properties. Models conforming to the KIM application programming interface (API) work seamlessly with major simulation codes that have adopted the KIM API standard.

Kokkos implements a programming model in C++ for writing performance portable applications targeting all major HPC platforms.

Network authentication protocol

LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel Simulator. This package uses patch releases, not stable release. See https://github.com/spack/spack/pull/5342 for a detailed discussion.

Free and lossless LiDAR compression

Open source density functional tight binding molecular dynamics.

Little cms is a color management library. Implements fast transforms between ICC profiles. It is focused on speed, and is portable across several platforms (MIT license).

Leptonica is an open source library containing software that is broadly useful for image processing and image analysis applications.

Libaec provides fast lossless compression of 1 up to 32 bit wide signed or unsigned integers (samples). It implements Golomb-Rice compression method under the BSD license and includes a free drop-in replacement for the SZIP library.

Linux native Asynchronous I/O interface library.

A Cross-platform Audio Library.

libarchive: C library and command-line tools for reading and writing tar, cpio, zip, ISO, and other archive formats.

This package provides semi-portable access to hardware-provided atomic memory update operations on a number architectures.

Beagle performs genotype calling, genotype phasing, imputation of ungenotyped markers, and identity-by-descent segment detection.

Using PLT trampolines to provide a BLAS and LAPACK demuxing library.

This library provides useful functions commonly found on BSD systems, and lacking on others like GNU systems, thus making it easier to port projects with strong BSD origins, without needing to embed the same code over and over again on each project.

A self-contained C library providing complex error functions, based on Faddeeva's plasma dispersion function w(z). Also provides Dawson's integral and Voigt's convolution of a Gaussian and a Lorentzian

Libcroco is a standalone css2 parsing and manipulation library.

Heavily optimized library for DEFLATE/zlib/gzip compression and decompression

A userspace library for accessing the DRM, direct rendering manager, on Linux, BSD and other systems supporting the ioctl interface.

An autotools compatible port of the NetBSD editline library

Epoxy is a library for handling OpenGL function pointer management for you.

The libevent API provides a mechanism to execute a callback function when a specific event occurs on a file descriptor or after a timeout has been reached. Furthermore, libevent also support callbacks due to signals or regular timeouts.

The Open Fabrics Interfaces (OFI) is a framework focused on exporting fabric communication services to applications.

The libffi library provides a portable, high level programming interface to various calling conventions. This allows a programmer to call any function specified by a call interface description at run time.

libfontenc - font encoding library.

Cryptographic library based on the code from GnuPG.

GD is an open source code library for the dynamic creation of images by programmers. GD is written in C, and 'wrappers' are available for Perl, PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP images, among other formats. GD is commonly used to generate charts, graphics, thumbnails, and most anything else, on the fly. While not restricted to use on the web, the most common applications of GD involve website development.

GeoTIFF represents an effort by over 160 different remote sensing, GIS, cartographic, and surveying related companies and organizations to establish a TIFF based interchange format for georeferenced raster imagery.

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.

Common error values for all GnuPG components.

Make a common GPU ndarray(n dimensions array) that can be reused by all projects that is as future proof as possible, while keeping it easy to use for simple need/quick test.

Gordon's Text utils Library.

libICE - Inter-Client Exchange Library.

GNU libiconv provides an implementation of the iconv() function and the iconv program for character set conversion.

library for id3 tagging

Libidn2 is a free software implementation of IDNA2008, Punycode and TR46. Its purpose is to encode and decode internationalized domain names.

Libint is a high-performance library for computing Gaussian integrals in quantum mechanics.

libjpeg-turbo is a fork of the original IJG libjpeg which uses SIMD to accelerate baseline JPEG compression and decompression.

libLAS is a C/C++ library for reading and writing the very common LAS LiDAR format.

This library provides message digest functions found on BSD systems either on their libc (NetBSD, OpenBSD) or libmd (FreeBSD, DragonflyBSD, macOS, Solaris) libraries and lacking on others like GNU systems.

THE reference library for reading, displaying, writing and examining Multiple-Image Network Graphics. MNG is the animation extension to the popular PNG image format.

Ogg is a multimedia container format, and the native file and stream format for the Xiph.org multimedia codecs.

The paper library and accompanying files are intended to provide a simple way for applications to take actions based on a system- or user-specified paper size.

Generic PCI access library.

libpng is the official PNG reference library.

The libpthread-stubs package provides weak aliases for pthread functions not provided in libc or otherwise available by default.

Library to render SVG files using Cairo

libSM - X Session Management Library.

Libsndfile is a C library for reading and writing files containing sampled sound (such as MS Windows WAV and the Apple/SGI AIFF format) through one standard library interface. It is released in source code format under the Gnu Lesser General Public License.

Sodium is a modern, easy-to-use software library for encryption, decryption, signatures, password hashing and more.

libssh2 is a client-side C library implementing the SSH2 protocol

LibTIFF - Tag Image File Format (TIFF) Library and Utilities.

Libtirpc is a port of Suns Transport-Independent RPC library to Linux.

libtool – library building part of autotools.

This library provides functions for manipulating Unicode strings and for manipulating C strings according to the Unicode standard.

A portable and efficient C programming interface (API) to determine the call-chain of a program.

Ogg Vorbis is a fully open, non-proprietary, patent-and-royalty-free, general-purpose compressed audio format for mid to high quality (8kHz- 48.0kHz, 16+ bit, polyphonic) audio and music at fixed and variable bitrates from 16 to 128 kbps/channel.

WebP is a modern image format that provides superior lossless and lossy compression for images on the web. Using WebP, webmasters and web developers can create smaller, richer images that make the web faster.

Libwhich: the functionality of which for libraries.

libX11 - Core X11 protocol client library.

The libXau package contains a library implementing the X11 Authorization Protocol. This is useful for restricting client access to the display.

Xaw is the X Athena Widget Set. Xaw is a widget set based on the X Toolkit Intrinsics (Xt) Library.

Libxc is a library of exchange-correlation functionals for density-functional theory.

The X protocol C-language Binding (XCB) is a replacement for Xlib featuring a small footprint, latency hiding, direct access to the protocol, improved threading support, and extensibility.

libXcursor - X Window System Cursor management library.

This package contains the library for the X Damage extension.

libXdmcp - X Display Manager Control Protocol library.

libXext - library for common extensions to the X11 protocol.

This package contains header files and documentation for the XFIXES extension. Library and server implementations are separate.

libXfont provides the core of the legacy X11 font system, handling the index files (fonts.dir, fonts.alias, fonts.scale), the various font file formats, and rasterizing them. It is used by the X servers, the X Font Server (xfs), and some font utilities (bdftopcf for instance), but should not be used by normal X11 clients. X11 clients access fonts via either the new API's in libXft, or the legacy API's in libX11.

X FreeType library.

libXi - library for the X Input Extension.

libXinerama - API for Xinerama extension to X11 Protocol.

xkbcommon is a library to handle keyboard descriptions, including loading them from disk, parsing them and handling their state. It's mainly meant for client toolkits, window systems, and other system applications.

XKB file handling routines.

Libxml2 is the XML C parser and toolkit developed for the Gnome project (but usable outside of the Gnome platform), it is free software available under the MIT License.

This library contains miscellaneous utilities and is not part of the Xlib standard. It contains routines which only use public interfaces so that it may be layered on top of any proprietary implementation of Xlib or Xt.

libXpm - X Pixmap (XPM) image file format library.

libXrandr - X Resize, Rotate and Reflection extension library.

libXrender - library for the Render Extension to the X11 protocol.

XScreenSaver - X11 Screen Saver extension client library

Libxslt is the XSLT C library developed for the GNOME project. XSLT itself is a an XML language to define transformation for XML. Libxslt is based on libxml2 the XML C library developed for the GNOME project. It also implements most of the EXSLT set of processor-portable extensions functions and some of Saxon's evaluate and expressions extensions.

Library for specialized dense and sparse matrix operations, and deep learning primitives.

libXt - X Toolkit Intrinsics library.

libXtst provides the Xlib-based client API for the XTEST & RECORD extensions.

libXxf86vm - Extension library for the XFree86-VidMode X extension.

A C library for parsing and emitting YAML.

The ZMQ networking/concurrency library and core API

The LLVM Project is a collection of modular and reusable compiler and toolchain technologies. Despite its name, LLVM has little to do with traditional virtual machines, though it does provide helpful libraries that can be used to build them. The name 'LLVM' itself is not an acronym; it is the full name of the project.

Symas LMDB is an extraordinarily fast, memory-efficient database we developed for the Symas OpenLDAP Project. With memory-mapped files, it has the read performance of a pure in-memory database while retaining the persistence of standard disk-based databases.

lp_solve is a Mixed Integer Linear Programming (MILP) solver.

LZ4 is lossless compression algorithm, providing compression speed at 400 MB/s per core, scalable with multi-cores CPU. It also features an extremely fast decoder, with speed in multiple GB/s per core, typically reaching RAM speed limits on multi-core systems.

Real-time data compression library

MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <~200 sequences), FFT-NS-2 (fast; for alignment of <~30,000 sequences), etc.

The MAGMA project aims to develop a dense linear algebra library similar to LAPACK but for heterogeneous/hybrid architectures, starting with current 'Multicore+GPU' systems.

makedepend - create dependencies in makefiles.

MAKER is a portable and easily configurable genome annotation pipeline. It's purpose is to allow smaller eukaryotic and prokaryotic genomeprojects to independently annotate their genomes and to create genome databases. MAKER identifies repeats, aligns ESTs and proteins to a genome, produces ab-initio gene predictions and automatically synthesizes these data into gene annotations having evidence-based quality values. MAKER is also easily trainable: outputs of preliminary runs can be used to automatically retrain its gene prediction algorithm, producing higher quality gene-models on subsequent runs. MAKER's inputs are minimal and its ouputs can be directly loaded into a GMOD database. They can also be viewed in the Apollo genome browser; this feature of MAKER provides an easy means to annotate, view and edit individual contigs and BACs without the overhead of a database. MAKER should prove especially useful for emerging model organism projects with minimal bioinformatics expertise and computer resources.

MariaDB turns data into structured information in a wide array of applications, ranging from banking to websites. It is an enhanced, drop-in replacement for MySQL. MariaDB is used because it is fast, scalable and robust, with a rich ecosystem of storage engines, plugins and many other tools make it very versatile for a wide variety of use cases. This package comprises only the standalone 'C Connector', which enables connections to MariaDB and MySQL servers.

Apache Maven is a software project management and comprehension tool.

mbed TLS (formerly known as PolarSSL) makes it trivially easy for developers to include cryptographic and SSL/TLS capabilities in their (embedded) products, facilitating this functionality with a minimal coding footprint.

Mesa is an open-source implementation of the OpenGL specification - a system for rendering interactive 3D graphics.

This package provides the Mesa OpenGL Utility library.

Mesquite (Mesh Quality Improvement Toolkit) is designed to provide a stand-alone, portable, comprehensive suite of mesh quality improvement algorithms and components that can be used to construct custom quality improvement algorithms. Mesquite provides a robust and effective mesh improvement toolkit that allows both meshing researchers application scientists to benefit from the latest developments in mesh quality control and improvement.

METIS is a set of serial programs for partitioning graphs, partitioning finite element meshes, and producing fill reducing orderings for sparse matrices. The algorithms implemented in METIS are based on the multilevel recursive-bisection, multilevel k-way, and multi-constraint partitioning schemes.

Free, lightweight, scalable C++ library for finite element methods.

mkfontdir creates the fonts.dir files needed by the legacy X server core font system. The current implementation is a simple wrapper script around the mkfontscale program, which must be built and installed first.

mkfontscale creates the fonts.scale and fonts.dir index files used by the legacy X11 font system.

Mono is a software platform designed to allow developers to easily create cross platform applications. It is an open source implementation of Microsoft's .NET Framework based on the ECMA standards for C# and the Common Language Runtime.

MotionCor2 is a multi-GPU program that corrects beam-induced sample motion recorded on dose fractionated movie stacks. It implements a robust iterative alignment algorithm that delivers precise measurement and correction of both global and non-uniform local motions at single pixel level, suitable for both single-particle and tomographic images. MotionCor2 is sufficiently fast to keep up with automated data collection.

Gnu Mpc is a C library for the arithmetic of complex numbers with arbitrarily high precision and correct rounding of the result.

Library for arbitrary precision interval arithmetic based on MPFR

The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.

GPU accelerated micromagnetic simulator.

MUMPS: a MUltifrontal Massively Parallel sparse direct Solver

C++ math expression parser library.

MySQL++ is a C++ wrapper for MySQL and MariaDB C APIs. It is built on the same principles as the Standard C++ Library to make dealing with the database as easy as dealing with std containers. MySQL++ also provides facilities that let you avoid the most repetitive sorts of SQL within your own code, providing native C++ interfaces for these common tasks.

NASM (Netwide Assembler) is an 80x86 assembler designed for portability and modularity. It includes a disassembler as well.

RMBlast search engine for NCBI

Optimized primitives for collective multi-GPU communication.

NCL is an interpreted language designed specifically for scientific data analysis and visualization. Supports NetCDF 3/4, GRIB 1/2, HDF 4/5, HDF-EOD 2/5, shapefile, ASCII, binary. Numerous analysis functions are built-in.

The NCO toolkit manipulates and analyzes data stored in netCDF-accessible formats

The ncurses (new curses) library is a free software emulation of curses in System V Release 4.0, and more. It uses terminfo format, supports pads and color and multiple highlights and forms characters and function-key mapping, and has all the other SYSV-curses enhancements over BSD curses.

Simple viewer for NetCDF files.

NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C distribution.

NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the C++ distribution.

NetCDF (network Common Data Form) is a set of software libraries and machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data. This is the Fortran distribution.

ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines

The Nettle package contains the low-level cryptographic library that is designed to fit easily in many contexts.

Data-driven computational pipelines.

nghttp2 is an implementation of HTTP/2 and its header compression algorithm HPACK in C.

Merging paired-end reads and removing adapters.

JSON for Modern C++

NLopt is a free/open-source library for nonlinear optimization, providing a common interface for a number of different free optimization routines available online as well as original implementations of various other algorithms.

NUMA support for Linux

OCaml is an industrial strength programming language supporting functional, imperative and object-oriented styles

GNU Octave is a high-level language, primarily intended for numerical computations.

Provides an Octave look-alike implementation of the Arduino extension for Matlab.

Computer-Aided Control System Design (CACSD) Tools for GNU Octave, based on the proven SLICOT Library

Octave bindings to the GNU Scientific Library

Instrument-Control is a package for interfacing the outside world of hardware via Serial, i2c or Parallel interfaces.

The IO package is part of the Octave Forge project and provides input/output from/in external formats.

Signal processing tools, including filtering, windowing and display functions.

Additional spline functions.

Additional statistics functions for Octave.

Adds symbolic calculation features to GNU Octave. These include common Computer Algebra System tools such as algebraic operations, calculus, equation solving, Fourier and Laplace transforms, variable precision arithmetic and other features. Compatibility with other symbolic toolboxes is intended.

Regular expression library.

Omni-Path Performance Scaled Messaging 2 (PSM2) library

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.

OpenCV (Open Source Computer Vision Library) is an open source computer vision and machine learning software library.

OpenEXR Graphics Tools (high dynamic-range image file format)

OpenFOAM is a GPL-opensource C++ CFD-toolbox. The openfoam.org release is managed by the OpenFOAM Foundation Ltd as a licensee of the OPENFOAM trademark. This offering is not approved or endorsed by OpenCFD Ltd, producer and distributor of the OpenFOAM software via www.openfoam.com, and owner of the OPENFOAM trademark.

The free and opensource java implementation

OpenJPEG is an open-source JPEG 2000 codec written in C language.

OpenLibm is an effort to have a high quality, portable, standalone C mathematical library

An open source Message Passing Interface implementation.

OpenSceneGraph is an open source, high performance 3D graphics toolkit that's used in a variety of visual simulation applications.

OpenSSH is the premier connectivity tool for remote login with the SSH protocol. It encrypts all traffic to eliminate eavesdropping, connection hijacking, and other attacks. In addition, OpenSSH provides a large suite of secure tunneling capabilities, several authentication methods, and sophisticated configuration options.

OpenSSL is an open source project that provides 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.

DFT pseudopotential generation project

Opus is a totally open, royalty-free, highly versatile audio codec.

Oracle instant client

Osi (Open Solver Interface) provides an abstract base class to a generic linear programming (LP) solver, along with derived classes for specific solvers. Many applications may be able to use the Osi to insulate themselves from a specific LP solver. That is, programs written to the OSI standard may be linked to any solver with an OSI interface and should produce correct results. The OSI has been significantly extended compared to its first incarnation. Currently, the OSI supports linear programming solvers and has rudimentary support for integer programming.

A Unix port of the 7z file archiver

If you need to convert files from one markup format into another, pandoc is your swiss-army knife.

Pango is a library for laying out and rendering of text, with an emphasis on internationalization. It can be used anywhere that text layout is needed, though most of the work on Pango so far has been done in the context of the GTK+ widget toolkit.

PAPI provides the tool designer and application engineer with a consistent interface and methodology for use of the performance counter hardware found in most major microprocessors. PAPI enables software engineers to see, in near real time, the relation between software performance and processor events. In addition Component PAPI provides access to a collection of components that expose performance measurement opportunities across the hardware and software stack.

PnetCDF (Parallel netCDF) is a high-performance parallel I/O library for accessing files in format compatibility with Unidata's NetCDF, specifically the formats of CDF-1, 2, and 5.

ParMETIS is an MPI-based parallel library that implements a variety of algorithms for partitioning unstructured graphs, meshes, and for computing fill-reducing orderings of sparse matrices.

PatchELF is a small utility to modify the dynamic linker and RPATH of ELF executables.

The PCRE package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.

The PCRE2 package contains Perl Compatible Regular Expression libraries. These are useful for implementing regular expression pattern matching using the same syntax and semantics as Perl 5.

Perl 5 is a highly capable, feature-rich programming language with over 27 years of development.

Acme:Damn provides a single routine, damn(), which takes a blessed reference (a Perl object), and unblesses it, to return the original reference.

Compute 'intelligent' differences between two files / lists

This module provides tools for building external (non-CPAN) dependencies for CPAN. It is mainly designed to be used at install time of a CPAN client, and work closely with Alien:Base which is used at runtime.

This module provides libxml2 for other modules to use.

BioPerl is the product of a community effort to produce Perl code which is useful in biology. Examples include Sequence objects, Alignment objects and database searching objects. These objects not only do what they are advertised to do in the documentation, but they also interact - Alignment objects are made from the Sequence objects, Sequence objects have access to Annotation and SeqFeature objects and databases, Blast objects can be converted to Alignment objects, and so on. This means that the objects provide a coordinated and extensible framework to do computational biology.

Efficient bit vector, set of integers and 'big int' math library

Capture STDOUT and STDERR from Perl, XS or external programs

Report errors from perspective of caller of a 'clan' of modules

CGI - Handle Common Gateway Interface requests and responses

For creating accessor/mutators to class data.

Checks several different modules which provides a clone() function and selects an appropriate one.

Stringified perl data structures, suitable for both printing and eval

Structured Tags datastructures

MySQL driver for the Perl5 Database Interface (DBI)

DBD:Pg is a Perl module that works with the DBI module to provide access to PostgreSQL databases.

DBD:SQLite - Self-contained RDBMS in a DBI Driver

DB_File is a module which allows Perl programs to make use of the facilities provided by Berkeley DB version 1.x (if you have a newer version of DB, see 'Using DB_File with Berkeley DB version 2 or greater'). It is assumed that you have a copy of the Berkeley DB manual pages at hand when reading this documentation. The interface defined here mirrors the Berkeley DB interface closely.

The DBI is the standard database interface module for Perl. It defines a set of methods, variables and conventions that provide a consistent database interface independent of the actual database being used.

An object representing a stack trace.

Devel:Symdump - dump symbol names or the symbol table

Determine the locale encoding

The Error package provides two interfaces. Firstly Error provides a procedural interface to exception handling. Secondly Error is a base class for errors/exceptions that can either be thrown, for subsequent catch, or can simply be recorded.

A module that allows you to declare real exception classes in Perl

An exporter with the features of Sub:Exporter but only core dependencies

ExtUtils:Config - A wrapper for perl's configuration

ExtUtils:Helpers - Various portability utilities for module builders

ExtUtils:InstallPaths - Build.PL install path logic made easy

ExtUtils:MakeMaker - Create a module Makefile. This utility is designed to write a Makefile for an extension module from a Makefile.PL. It is based on the Makefile.SH model provided by Andy Dougherty and the perl5-porters.

This module checks whether a particular dynamic library is available for FFI to use. It is modeled heavily on Devel:CheckLib, but will find dynamic libraries even when development packages are not installed. It also provides a find_lib function that will return the full path to the found dynamic library, which can be feed directly into FFI::Platypus or another FFI system.

Perl's chdir() has the unfortunate problem of being very, very, very global. If any part of your program calls chdir() or if any library you use calls chdir(), it changes the current working directory for the whole program.

Perl extension for recursively copying files and directories

Find your home and other directories on any platform

Parse directory listing

Install shared files

Perl implementation of the which utility as an API

The 'forks' pragma allows a developer to use threads without having to have a threaded perl, or to even run 5.8.0 or higher.

Graph data structures and algorithms

Hash:Merge merges two arbitrarily deep hashes into a single hash.

HTML parser class

Data tables useful in parsing HTML

HTTP cookie jars

A simple http server class

Date conversion routines

HTTP style message (base class)

Choose a variant to serve

Write Perl Subroutines in Other Programming Languages

C Language Support for Inline

IO:All combines all of the best Perl IO modules into a single nifty object oriented interface to greatly simplify your everyday Perl IO idioms. It exports a single function called io, which returns a new IO::All object. And that object can do it all!

Open an HTML file with automatic charset detection.

By default, this module exports a single function prompt. It prompts the user to enter some input, and returns an object that represents the user input.

Emulate file interface for in-core strings

This toolkit primarily provides modules for performing both traditional and object-oriented i/o) on things other than normal filehandles; in particular, IO:Scalar, IO::ScalarArray, and IO::Lines.

IO:Tty is used internally by IO::Pty to create a pseudo-tty. You wouldn't want to use it directly except to import constants, use IO::Pty. For a list of importable constants, see IO::Tty::Constant.

IPC:Run allows you to run and interact with child processes using files, pipes, and pseudo-ttys. Both system()-style and scripted usages are supported and may be mixed. Likewise, functional and OO API styles are both supported and may be mixed.

The libwww-perl collection is a set of Perl modules which provides a simple and consistent application programming interface to the World-Wide Web. The main focus of the library is to provide classes and functions that allow you to write WWW clients.

libxml-perl is a collection of smaller Perl modules, scripts, and documents for working with XML in Perl. libxml-perl software works in combination with XML:Parser, PerlSAX, XML::DOM, XML::Grove and others.

Provide the stuff missing in List:Util

List:MoreUtils::XS is a backend for List::MoreUtils. Even if it's possible (because of user wishes) to have it practically independent from List::MoreUtils, it technically depend on List::MoreUtils. Since it's only a backend, the API is not public and can change without any warning.

Implementation of the Simran-Log-Log and Simran-Error-Error modules

Guess media type for a file or a URL

Perl module for handling mail

MCE - Many-Core Engine for Perl providing parallel processing capabilities.

Module:Build is a system for building, testing, and installing Perl modules. It is meant to be an alternative to ExtUtils::MakeMaker. Developers may alter the behavior of the module through subclassing in a much more straightforward way than with MakeMaker. It also does not require a make on your system - most of the Module::Build code is pure-perl and written in a very cross-platform way.

Module:Build::Tiny - A tiny replacement for Module::Build

Low-level HTTP connection (client)

Implements inside-out objects as anonymous scalar references that are blessed into a class with the scalar containing the ID for the object (usually a sequence number).

A simple parallel processing fork manager

Generate Recursive-Descent Parsers

This module provides a small, fast utility for working with file paths. It is friendlier to use than File:Spec and provides easy access to functions from several other core file handling modules. It aims to be smaller and faster than many alternatives on CPAN, while helping people do many common things in consistent and less error-prone ways.

Acmeist PEG Parser Framework

Quoting perl581delta:

Readonly - Facility for creating read-only scalars, arrays, hashes

Scalar:Util - A selection of general-utility scalar subroutines

This module exports a number of wrappers around perl's builtin grok_number function, which returns the numeric type of its argument, or 0 if it isn't numeric.

Set:Scalar - basic set operations

apparently run a function in a higher stack frame

Prior to version 5.8.0 perl implemented 'unsafe' signal handling. The reason it is consider unsafe, is that there is a risk that a signal will arrive, and be handled while perl is changing internal data structures. This can result in all kinds of subtle and not so subtle problems. For this reason it has always been recommended that one do as little as possible in a signal handler, and only variables that already exist be manipulated.

Term:ReadKey is a compiled perl module dedicated to providing simple control over terminal driver modes (cbreak, raw, cooked, etc.,) support for non-blocking reads, if the architecture allows, and some generalized handy functions for working with terminals. One of the main goals is to have the functions as portable as possible, so you can just plug in 'use Term::ReadKey' on any architecture and have a good likelihood of it working.

Extremely flexible deep comparison

Test strings and data structures and show differences if not ok

Test exception-based code

Most commonly needed test functions and features.

Skip tests when modules not available.

Easily test network connectivity

Perl extension to test methods for warnings

Provides a basic set of services akin to the GNU diff utility.

Soundex is a phonetic algorithm for indexing names by sound, as pronounced in English. The goal is for names with the same pronunciation to be encoded to the same representation so that they can be matched despite minor differences in spelling

Thread:Queue - Thread-safe queues.

threads - Perl interpreter-based threads

The parser contained here will only parse absolute dates, if you want a date parser that can parse relative dates then take a look at the Time modules by David Muir on CPAN.

Minimal try/catch with proper preservation of $@

Uniform Resource Identifiers (absolute and relative)

A generalisation of wantarray.

Database of robots.txt-derived permissions

This module extends the XML:Parser module by Clark Cooper. The XML::Parser module is built on top of XML::Parser::Expat, which is a lower level interface to James Clark's expat library.

XML:DOM::XPath allows you to use XML::XPath methods to query a DOM. This is often much easier than relying only on getElementsByTagName.

This is a very simple filter. One common cause of grief (and programmer error) is that XML parsers aren't required to provide character events in one chunk. They can, but are not forced to, and most don't. This filter does the trivial but oft-repeated task of putting all characters into a single event.

This module is an interface to libxml2, providing XML and HTML parsers with DOM, SAX and XMLReader interfaces, a large subset of DOM Layer 3 interface and a XML:XPath-like interface to XPath API of libxml2. The module is split into several packages which are not described in this section; unless stated otherwise, you only need to use XML::LibXML; in your programs.

This module offers a simple to process namespaced XML names (unames) from within any application that may need them. It also helps maintain a prefix to namespace URI map, and provides a number of basic checks.

XML:Parser - A perl module for parsing XML documents

This module provides functions to quote/dequote strings in 'xml'-way.

This package contains regular expressions for the following XML tokens: BaseChar, Ideographic, Letter, Digit, Extender, CombiningChar, NameChar, EntityRef, CharRef, Reference, Name, NmToken, and AttValue.

XML:SAX is a SAX parser access API for Perl. It includes classes and APIs required for implementing SAX drivers, along with a factory class for returning any SAX parser installed on the user's system.