- Due to the different processor architectures in HPC, all the software listed below has been compiled for both AMD and INTEL.
Depending on their architecture, the compute nodes load the path so that the correct modules are accessible. This means that in the job, you only need to indicate the modules you want to load for each execution:
e.g.: module load XXXX/yyyyy
Compilers
...
and
...
Interpreters
Name | Version: Default(OthersVersions (Min - Max) | Description |
|---|---|---|
AbseilBison | 20230125.2-GCCcore-123.8.2 .0 | Parser generator (YACC replacement) for converting grammar rules into Google’s C++ library providing foundational components for modern C++ code. |
Armadilloflex | 112.6.4.3-foss-2022b | C++ linear algebra library with MATLAB-like syntax. |
Arpack-ng | 3.8.0-foss-2022b | A library for solving large-scale eigenvalue problems (sparse matrices). |
ATK | 2.38.0-GCCcore-12.2.0 ,2.46.0-GCCcore-12.2.0 | Framework for creating accessible applications in GNOME. |
Autoconf | 2.71-GCCcore-11.3.0 - 2.72-GCCcore-13.3.0 | Tool for generating automatic configuration scripts in software projects. |
Autotools | 1.16.5-GCCcore-11.3.0 - 1.16.5-GCCcore-13.3.0 | Suite of tools (Autoconf, Automake, Libtool) for compiling and packaging software. |
Binutils | 2.38 - 2.42 | Collection of binary tools (e.g., |
Bison | 3.8.2 | Parser generator (YACC replacement) for converting grammar rules into code. |
BLIS | 0.9.0 | High-performance BLAS (Basic Linear Algebra Subprograms) library. |
Boost | 1.81-1.82 | Extensive C++ library collection for tasks like multithreading, algorithms, and data structures. |
Brotli | 1.0.9 | Google’s compression algorithm/library for efficient data compression. |
Brunsli | 0.1-GCCcore-12.2.0 | Lossless JPEG repacking library (improves compression). |
bzip2 | 1.0.8 | Compression library and tool for lossless data compression. |
cairo | 1.17.4-GCCcore-12.2.0, 1.17.8-GCCcore, 12.3.0 , 1.18.0-GCCcore-13.3.0 | 2D graphics library supporting vector and raster output (used in GTK, browsers). |
CASTEP | 25.1.1-intel-2024a, 25.1.1-foss-2023b | First-principles quantum mechanics code for materials modeling. |
Catch2 | 2.13.9 | Modern C++ testing framework (header-only, simple syntax). |
cffi | 1.15.1 | Foreign function interface (FFI) for Python to call C code. |
CFITSIO | 4.2.0 - 4.3.1 | Library for reading/writing FITS files (astronomy data format). |
CGAL | 5.6-GCCcore-12.3.0 | Computational Geometry Algorithms Library (C++ templates for geometric operations). |
CMake | 3.24.3 - 3.29.3 | Cross-platform build system generator (replaces Makefiles). |
crytography | 41.0.1, 41.0.5 | Python library for secure cryptographic operations (e.g., encryption, hashing). |
cURL | 7.86.0 - 8.7.1 | Command-line tool and library for transferring data with URLs (supports HTTP, FTP, etc.). |
Cython | 3.0.10-GCCcore-13.2.0 | Python-to-C compiler for writing C extensions in Python-like syntax. |
DB | 18.1.40 | Embedded database library for key-value storage. |
DBus | 1.15.2 - 1.15.4 | Message bus system for inter-process communication (IPC) in Linux. |
double-conversion | 3.3.0 | Library for precise binary-decimal number conversion (used in V8, LLVM). |
Doxygen | 1.9.5 - 1.11.0 | Documentation generator for C++, C, Java, etc. (extracts comments into docs). | Easybuild | 4.9.1, 5.0.0 | Framework for automating software builds on HPC systems
Fast lexical analyzer generator (lexical tokenizer, often used with Bison). | ||
GCC | 12.2.0 - 13.2.0 | A suite of compilers for C, C++, Fortran, Ada, and other languages. |
GCCcore | 11.3.0 - 13.3.0 | Core GNU Compiler Collection (C/C++/Fortran compilers) without OS dependencies |
iimpi | 2022a - 2024a | EasyBuild toolchain (Intel compilers + Intel MPI) |
impi | 2021.6.0 - 2021.13.0 | Intel C/C++/Fortran compilers (icc/icpc/ifort) |
intel-compilers | 2022.1.0 - 2024.2.0 | Meta-module for Intel development tools |
INTEL | 2023.0, 2024.0 | Intel C/C++/Fortran compilers (icc/icpc/ifort) |
Java | 11.0.20, 17.0.6 | Oracle Java Development Kit/Runtime |
LLVM | 15.0.5 - 18.1.8 | Compiler infrastructure project (clang, lldb, opt, etc.) |
Lua | 5.4.6 | Lightweight embeddable scripting language |
NASM | 2.15.05 - 2.16.03 | Netwide Assembler for x86/x64 architectures |
Perl | 5.34.1 - 5.38.2 | Practical Extraction and Reporting Language |
Python | 3.10.8 - 3.12.3 | High-level interpreted programming language |
| R | 4.2.2-foss-2022b, 4.4.2 | Statistical computing and graphics language |
| Rust | 1.65.0 - 1.73.0 | Systems programming language focused on safety |
| Tcl | 8.6.12 - 8.6.14 | Tool Command Language scripting language |
| Yasm | 1.3.0 | Modular assembler for x86 optimization |
Libraries
Name | Versions (Min - Max) | Description |
|---|---|---|
Abseil | 20230125.2 | Google’s C++ library providing foundational components for modern C++ code. |
Armadillo | 11.4.3-foss-2022b | C++ linear algebra library with MATLAB-like syntax. |
Arpack-ng | 3.8.0-foss-2022b | A library for solving large-scale eigenvalue problems (sparse matrices). |
ATK | 2.38.0 ,2.46.0 | Framework for creating accessible applications in GNOME. |
BLIS | 0.9.0 | High-performance BLAS (Basic Linear Algebra Subprograms) library. |
Boost | 1.81-1.82 | Extensive C++ library collection for tasks like multithreading, algorithms, and data structures. |
Brotli | 1.0.9 | Google’s compression algorithm/library for efficient data compression. |
Brunsli | 0.1 | Lossless JPEG repacking library (improves compression). |
bzip2 | 1.0.8 | Compression library and tool for lossless data compression. |
cairo | 1.17.4, 1.17.8, 12.3.0 , 1.18.0 | 2D graphics library supporting vector and raster output (used in GTK, browsers). |
Catch2 | 2.13.9 | Modern C++ testing framework (header-only, simple syntax). |
cffi | 1.15.1 | Foreign function interface (FFI) for Python to call C code. |
CFITSIO | 4.2.0 - 4.3.1 | Library for reading/writing FITS files (astronomy data format). |
CGAL | 5.6 | Computational Geometry Algorithms Library (C++ templates for geometric operations). |
cryptography | 41.0.1, 41.0.5 | Python library for secure cryptographic operations (e.g., encryption, hashing). |
cURL | 7.86.0 - 8.7.1 | Command-line tool and library for transferring data with URLs (supports HTTP, FTP, etc.). |
DB | 18.1.40 | Embedded database library for key-value storage. |
double-conversion | 3.3.0 | Library for precise binary-decimal number conversion (used in V8, LLVM). |
Eigen | 3.4.0 | C++ template library for linear algebra (matrices, vectors, numerical solvers). |
expat | 2.4.8 - 2.6.2 | Stream-oriented XML parser library written in C | FFmpg | 6.0-GCCcore-12.3
. | ||
Multimedia framework for handling audio/video (encoding, decoding, streaming). | ||
ffnvcodec | 12.0.16.0 | NVIDIA’s hardware-accelerated video codec SDK (for FFmpeg). |
FFTW | 3.3.10 | Fastest Fourier Transform in the West (C library for FFT computations). |
FLAC | 1.4.2 | Free Lossless Audio Codec for compressed audio without quality loss. |
flex | 2.6.4 | Fast lexical analyzer generator (lexical tokenizer, often used with Bison). |
FlexiBLAS | 3.2.1 - 3.4.4 | A flexible BLAS (Basic Linear Algebra Subprograms) wrapper that allows runtime switching between different BLAS implementations. |
3.9.0 | A simple Python packaging tool for pure-Python modules (alternative to | |
fontconfig | 2.14.1 - 2.15.0 | A library for configuring and customizing font access in Linux/Unix systems (used by GUI apps). |
fonttools | 4.53.1 | A Python library for manipulating fonts (e.g., OpenType, TrueType) programmatically. | foss | 2022b - 2024a | Free and Open Source Software tools
freeglut | 3.4.0 | An open-source alternative to GLUT (OpenGL Utility Toolkit) for creating OpenGL windows and handling input. |
freetype | 2.12.1 | A widely used library for rendering fonts (supports multiple font formats like TTF, OTF). |
friBidi | 1.0.12 ,1.0.15 | A library for handling bidirectional text (e.g., Arabic, Hebrew mixed with left-to-right languages). |
GDAL | ||
3.6.2 | A suite of compilers for C, C++, Fortran, Ada, and other languages. | GCCcore | GDAL | Gdk-Pixbuf | GEOS | gettext | gfbf | Ghostscript | giflib | git | GL2PS | GLib | GLPK | GMP | gnuplot | GObject-Introspection | gompi | googletest | gperf | graphite2 | groff | GSL | GTK3 | gzip | HarfBuzz | hatchling | HDF | HDF5 | help2man | hwloc | hypothesis | ICU | iimpi | ImageMagick | Imath | imkl-FFTW | imkl | impi | intel-compilers | INTEL | 2023.0, 2024.0 | intltool | JasPer | Java | jbigkit | jq | json-c |
|
|
|
|
|
|
|
| PYTHON | 3.9.0, 3.11.1 |
Development Libraries
...
Name
...
Version: Default(Others)
...
Description
...
ARGTABLE
...
2.13
...
ANSI C library for parsing GNU style command line options with a minimum of fuss
...
ASTRON
...
2014
...
IDL Astronomy Users Library
...
BEAGLE
...
r1090
...
A high-performance library that can perform the core calculations at the heart of most Bayesian and Maximum Likelihood phylogenetics packages. It can make use of highly-parallel processors such as those in graphics cards (GPUs)
...
BOOST
...
1.52.0
...
Boost provides free peer-reviewed portable C++ source libraries
...
CANTERA
...
2.2.0(also 2.2.1)
...
Open-source collection of object-oriented software tools for problems involving chemical kinetics, thermodynamics, and transport processes
...
CGIS
...
4.1
...
CLASS
...
Nov2011
...
CUDA
...
4.2.9(also 4.0.17, 7.0.28, 7.5.18)
...
a parallel computing platform and programming model to exploit the power of graphics processing unit (GPU)
...
EIGEN
...
3.8.2
...
C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms.
...
GDAL
...
1.9.2
...
is a translator library for raster geospatial data formats
...
GSL
...
1.15 (1.15 (also 1.15INTEL, 1.5_ICC, 2.3)
...
GNU Scientific Library (GSL) is a numerical library for C and C++ programmers
...
HDF5
...
1.8.10 (also 1.8.10INTEL, 1.8.16, 1.8.8_ICC)
...
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
...
IGRAPH
...
0.7.1
...
Collection of network analysis tools with the emphasis on efficiency, portability and ease of use. igraph is open source and free. igraph can be programmed in R, Python and C/C++
...
LAPACK
...
3.4.1
...
Linear Algebra PACKage
...
LIBTOOL
...
2.4.2
...
Generic library support script. Libtool hides the complexity of using shared libraries behind a consistent, portable interface.
...
LUAJIT
...
2.0
...
A Just-In-Time Compiler for Lua.
...
MPFIT
...
1.3
...
A MINPACK-1 Least Squares Fitting Library in C
...
MPICH
...
3.0.4 (also 3.0.4_ICC)
...
A high performance and widely portable implementation of MPI standard.
...
MVAPICH2
...
2.0 (also 2.1rc1, 2.2)
...
MPI-3 over OpenFabrics-IB, OpenFabrics-iWARP, PSM, uDAPL and TCP/IP
...
NETCDF
...
4.2.1.1 (also 4.1.3, 4.4.0 and fortran 4.4.3)
...
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.
...
OPENBLAS
...
0.2.15
...
Optimized BLAS library based on GotoBLAS2 1.13 BSD version
...
OPENMPI
...
1.8.3(also 4.0.1, 1.8.4rc1, 1.8.3_ICC,1.6.5,1.6.3_ICC,1.4.5)
...
Open source MPI-2 implementation that is developed and maintained by a consortium of academic, research, and industry
...
PAPI
...
5.4.0(also 5.0.1)
...
The Performance API (PAPI) project specifies a standard application programming interface (API) for accessing hardware performance counters available on most modern microprocessors.
...
PROJ4
...
4.8.0
...
Cartographic Projections library
...
QT4
...
4.8.5
...
Cross-platform application development framework for desktop, embedded and mobile
Applications
General
...
Name
...
Version: Default (Others)
...
Description
...
ANSYS
...
2019R3
...
CFD simulation package for internal combustion engines
...
MATLAB
...
R2019b
...
Lenguaje de alto nivel y un entorno interactivo para el cálculo numérico, la visualización y la programación. VERSION EN PARALELO.
...
SAGE
...
5.3 (also 6.4.1)
...
Open source alternative to MATLAB
...
R
...
2.15.1 (also 3.2.3, 3.2.1)
...
Free software environment for statistical computing and graphics. VERSION EN PARALELO
High Energy & Nuclear Physics
...
Name
...
Version: Default (Others)
...
Description
...
ROOT
...
5.34.01 (also 5.34.17)
...
An object oriented framework for large scale data analysis developed at CERN. VERSION EN PARALELO: PROOF
...
CMS SW
...
Software setup for the CMS collaboration at CERN
Quantum Models for Atoms and Molecules
...
Name
...
Version: Default (Others)
...
Description
...
SIESTA
...
3.1 (also 4.0)
...
A method and its computer program implementation, to perform efficient electronic structure calculations and ab initio molecular dynamics simulations of molecules and solids.
...
CPMD
...
3.15.1
...
Car-Parrinello Molecular Dynamics: An ab initio Electronic Structure and Molecular Dynamics Program
...
DL_POLY
...
2.20
...
a general purpose classical molecular dynamics (MD) simulation software developed at Daresbury Laboratory
...
LAMMPS
...
22Feb13
...
a classical molecular dynamics code, and an acronym for Large-scale Atomic/Molecular Massively Parallel Simulator.
...
VASP
...
5.4.4_INTEL
5.3_INTEL
...
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.
Computing Science
...
Name
...
Version: Default (Others)
...
Description
...
EXTRAE
...
2.3
...
is a dynamic instrumentation package to trace programs compiled and run with the shared memory model (like OpenMP and pthreads), the message passing (MPI) programming model or both programming models (different MPI processes using OpenMP or pthreads within each MPI process)
-foss-2022b | Geospatial Data Abstraction Library for raster/vector geospatial formats | |
Gdk-Pixbuf | 2.42.10 | Image loading/manipulation library for GTK+ GUI toolkit |
GEOS | 3.11.1 | Geometry Engine - Open Source (computational geometry library) |
giflib | 5.2.1 | Library for reading/writing GIF image format |
GL2PS | 1.4.2 | OpenGL to PostScript/PDF/SVG exporter |
GLib | 2.75.0 - 2.80.4 | Core application building blocks for GNOME (data structures, I/O, threading) |
GLPK | 5.0 | GNU Linear Programming Kit (solver for optimization problems) |
GMP | 6.2.1 | GNU Multiple Precision Arithmetic Library |
graphite2 | 1.3.14 | Smart font rendering engine for complex scripts |
GSL | 2.7 | GNU Scientific Library (numerical algorithms) |
HarfBuzz | 5.3.1, 9.0.0 | Text shaping engine (OpenType font rendering) |
HDF | 4.2.15 | Hierarchical Data Format (legacy version) |
HDF5 | 1.12.2 - 1.14.3 | Hierarchical Data Format v5 (data management for large datasets) |
ICU | 72.1 - 75.1 | International Components for Unicode (i18n/l10n) |
Imath | 3.1.6 | Math library for computer graphics (originally from ILM) |
imkl-FFTW | 2022.1.0 - 2024.2.0 | Intel Math Kernel Library's FFTW3-compatible interface |
jbigkit | 2.1 | JBIG1 image compression library |
json-c | 0.16 | JSON library for C applications |
LERC | 4.0.0 | Limited Error Raster Compression (geospatial) |
libarchive | 3.6.1 - 3.7.4 | Multi-format archive/library compression |
libcerf | 2.3 | Complex error function library |
libdeflate | 1.15, 1.20 | Fast DEFLATE/zlib/gzip compression |
libdrm | 2.4.114 - 2.4.122 | Direct Rendering Manager library (Linux graphics) |
libepoxy | 1.5.10 | GL dispatch library abstraction |
libevent | 2.1.12 | Asynchronous event notification library |
libfabric | 1.16.1 - 1.21.0 | OpenFabrics Interfaces (high-performance networking) |
libff | 3.4.4, 3.4.5 | Foreign Function Interface library (calling between languages) |
libgd | 2.3.3 | Graphics drawing library (dynamic image creation) |
libgeotiff | 1.7.1 | GeoTIFF GIS metadata handling library |
libgit2 | 1.5.0, 1.8.1 | Portable Git implementation library |
libGLU | 9.0.2, 9.0.3 | OpenGL Utility Library (higher-level graphics helpers) |
libglvnd | 1.6.0, 1.7.0 | Vendor-neutral GL dispatch library |
libiconv | 1.17 | Character encoding conversion library |
libjpeg-turbo | 2.1.4, 2.1.5, 3.0.1 | Accelerated JPEG codec with SIMD support |
libogg | 1.3.5 | Ogg multimedia container library |
libopus | 1.3.1 | Opus audio codec implementation |
libpciaccess | 0.17, 0.18 | Uniform interface to PCI devices |
libpng | 1.6.38 - 1.6.43 | Reference implementation for PNG image format handling |
libreadline | 8.1.2, 8.2 | Interactive command-line editing library (used in bash, Python, etc.) |
libsndfile | 1.2.0 | Audio file I/O library supporting WAV, AIFF, FLAC, OGG, and others |
LibTIFF | 4.4.0, 4.6.0 | Library for reading/writing TIFF image format with metadata support |
libtirpc | 1.3.3 | Transport-independent RPC implementation (SunRPC replacement) |
libtool | 2.4.7 | Generic library support script for building shared libraries portably |
libunwind | 1.6.2, 1.8.1 | Stack unwinding library for exception handling and debugging |
libvorbis | 1.3.7 | Reference implementation of Vorbis audio compression format |
libxml2 | 2.10.3 - 2.12.7 | XML parsing library with DOM, SAX, and XPath support |
libxslt | 1.1.37 | XSLT processing library based on libxml2 |
LittleCMS | 2.14 | Color management engine (ICC profile handling) |
Mako | 1.2.4 - 1.3.5 | Python templating library (similar to Jinja2) |
METIS | 5.1.0 | Graph partitioning and fill-reducing matrix ordering library |
MPFR | 4.2.0 | Multiple-precision floating-point computations library |
ncurses | 6.3 - 6.5 | Terminal UI library for text-based interfaces |
netCDF | 4.9.0, 4.9.2 | Network Common Data Format for scientific array data |
nettle | 3.8.1 | Low-level cryptographic library |
Ninja | 1.11.1 | Small build system focused on speed |
nlohmann_json | 3.11.2 | C++ header-only JSON parser/serializer |
NLopt | 2.7.1 | Nonlinear optimization library with C/C++ interfaces |
NSS | 3.89.1 | Network Security Services (crypto library for browsers) |
OpenBLAS | 0.3.21 - 0.3.27 | Optimized BLAS/LAPACK implementation with multi-threading |
OpenEXR | 3.1.5 | High dynamic-range (HDR) image file format by ILM |
OpenSSL | 1.1, 3 | Cryptography/TLS toolkit implementing SSL protocols |
Pango | 1.50.12, 1.50.14 | Text layout/rendering library for internationalization |
ParaView | 5.11.2-foss-2023a | Scientific visualization application for large datasets |
PCRE | 8.45 | Perl Compatible Regular Expressions library |
PCRE2 | 10.40 - 10.43 | Modern successor to PCRE with improved Unicode support |
PROJ | 9.1.1 | Coordinate transformation library for geospatial data |
protobuf | 23.0 | Protocol Buffers data serialization format (Google) |
pybind11 | 2.10.3, 2.11.1 | Seamless interoperability between C++ and Python |
Qhull | 2020.2 | Convex hull, Delaunay triangulation library |
| ScaLAPACK | 2.2.0 | Scalable Linear Algebra PACKage for parallel systems |
| SciPy-bundle | 2023.02 - 2023.11 | Collection of Python scientific libraries |
| SCOTCH | 7.0.3 | Graph partitioning and mesh handling library |
| SDL2 | 2.28.2 | Simple DirectMedia Layer (cross-platform multimedia) |
| setuptools-rust | 1.6.0, 1.8.0 | Rust support for Python setuptools |
| snappy | 1.1.10 | Fast compression/decompression library by Google |
| SQLite | 3.39.4 - 3.45.3 | Embedded relational database engine |
| Szip | 2.1.1 | Lossless data compressor for scientific data |
| UCC | 1.1.0 * 1.3.0 | Unified Collective Communication Library |
| UCX | 1.12.1 - 1.16.1 | Unified Communication X framework for HPC |
| UDUNITS | 2.2.28 | Unit conversion library for physical quantities |
| x264 | 20230226 | H.264/AVC video encoder |
| x265 | 3.5 | H.265/HEVC video encoder |
| Xerces-C++ | 3.2.4 | XML parser and toolkit for C++ |
| zlib | 1.2.12, 1.2.13, 1.3.1 | Compression library (DEFLATE algorithm) |
| zstd | 1.5.2 - 1.5.6 | Fast real-time compression algorithm |
ToolKits and Development
Name | Versions (Min - Max) | Description |
|---|---|---|
Autoconf | 2.71 - 2.72 | Tool for generating automatic configuration scripts in software projects. |
Autotools | 1.16.5 - 1.16.5 | Suite of tools (Autoconf, Automake, Libtool) for compiling and packaging software. |
Binutils | 2.38 - 2.42 | Collection of binary tools (e.g., |
CMake | 3.24.3 - 3.29.3 | Cross-platform build system generator (replaces Makefiles). |
crytography | 41.0.1, 41.0.5 | Python library for secure cryptographic operations (e.g., encryption, hashing). |
cURL | 7.86.0 - 8.7.1 | Command-line tool and library for transferring data with URLs (supports HTTP, FTP, etc.). |
Cython | 3.0.10 | Python-to-C compiler for writing C extensions in Python-like syntax. |
Doxygen | 1.9.5 - 1.11.0 | Documentation generator for C++, C, Java, etc. (extracts comments into docs). |
Easybuild | 4.9.1, 5.0.0 | Framework for automating software builds on HPC systems. |
flit | 3.9.0 | A simple Python packaging tool for pure-Python modules (alternative to |
foss | 2022b - 2024a | Free and Open Source Software tools |
git | 2.38.1 - 2.45.1 | Distributed version control system |
gfbf | 2022b - 2024a | EasyBuild toolchain (GCC + FFTW + BLAS/LAPACK + ScaLAPACK) |
gompi | 2022b - 2024a | EasyBuild toolchain (GCC + OpenMPI) |
googletest | 1.12.1 | Google's C++ testing framework |
gperf | 3.1 | Perfect hash function generator |
help2man | 1.49.2,1.49.3 | Automated man page generator from --help output |
iimpi | 2022a - 2024a | EasyBuild toolchain (Intel compilers + Intel MPI) |
lit | 18.1.8 | LLVM Integrated Tester (lightweight testing tool) |
make | 4.3 - 4.4.1 | Build automation tool that executes Makefiles |
MATLAB | 2025a | Numerical computing environment and proprietary language |
Meson | 0.64.0 - 1.4.0 | Modern build system focusing on speed and simplicity |
Ninja | 1.11.1 | Small build system focused on speed |
pkgconf | 1.8.0 - 2.2.0 | System to manage compile/link flags (pkg-config replacement) |
| scikit-build | 0.17.6 | Improved build system generator for Python |
| setuptools-rust | 1.6.0, 1.8.0 | Rust support for Python setuptools |
Apps and Utilities
Name | Versions (Min - Max) | Description |
|---|---|---|
CASTEP | 25.1.1-intel-2024a, 25.1.1-foss-2023b | First-principles quantum mechanics code for materials modeling. |
FFmpg | 6.0 | Multimedia framework for handling audio/video (encoding, decoding, streaming). |
Ghostscript | 10.0.0 | PostScript/PDF interpreter and rendering engine |
gnuplot | 5.4.8 | Command-line driven graphing/plotting utility |
ImageMagick | 7.1.0-53 | Image manipulation/conversion CLI suite |
jq | 1.6 | Lightweight JSON processor (CLI tool) |
LAME | 3.100 | MP3 audio encoder |
MATLAB | 2025a | Numerical computing environment and proprietary language |
nodejs | 18.12.1, 18.17.1 | JavaScript runtime built on Chrome's V8 engine |
OpenFOAM | v2312-foss-2023a | Open-source computational fluid dynamics (CFD) toolkit |
ParaView | 5.11.2-foss-2023a | Scientific visualization application for large datasets |
patchelf | 0.18.0 | Modify ELF binaries (RPATH, interpreter) |
poetry | 1.5.1, 1.6.1 | Python dependency management and packaging tool |
| ROOT | 6.26.10, 6.30.06 | Data analysis framework (CERN particle physics) |
| time | 1.9 | Command execution timing utility |
| virtualenv | 20.23.1, 20.24.6 | Python environment isolation tool |
| WRF | 4.4.1 | Weather Research and Forecasting model |
| Xvfb | 21.1.6 | X server in virtual framebuffer memory |
System Utils
Name | Versions (Min - Max) | Description |
|---|---|---|
DBus | 1.15.2 - 1.15.4 | Message bus system for inter-process communication (IPC) in Linux. |
gettext | 0.21.1,0.22.5 | GNU internationalization/i18n framework for multi-language software |
groff | 1.22.4 - 1.23.0 | GNU troff document formatting system (man pages) |
gzip | 1.12,1.13 | File compression/decompression utility |
hwloc | 2.8.0 - 2.10.0 | Portable Hardware Locality (hardware topology mapping) |
numactl | 2.0.14 - 2.0.18 | NUMA (Non-Uniform Memory Access) control utilities |
| util-linux | 2.38.1 - 2.40.0 | Collection of Linux system utilities |
| Wayland | 1.23.0 | Display server protocol (modern X11 replacement) |
| X11 | 20221110, 20230603, 20240607 | Core protocol for X Window System |
FrameWorks
Name | Versions (Min - Max) | Description |
|---|---|---|
GObject-Introspection | 1.74.0 - 1.90.1 | Middleware for language bindings to C libraries |
GTK3 | 3.24.35 | GIMP Toolkit v3 (GUI widget toolkit) |
| Qt5 | 5.15.10 | Cross-platform application framework for GUIs |
| Tk | 8.6.12 - 8.6.14 | GUI toolkit for Tcl |
All Software
Name | Versions (Min - Max) | Description |
|---|---|---|
Abseil | 20230125.2 | Google’s C++ library providing foundational components for modern C++ code. |
Armadillo | 11.4.3-foss-2022b | C++ linear algebra library with MATLAB-like syntax. |
Arpack-ng | 3.8.0-foss-2022b | A library for solving large-scale eigenvalue problems (sparse matrices). |
ATK | 2.38.0 ,2.46.0 | Framework for creating accessible applications in GNOME. |
Autoconf | 2.71 - 2.72 | Tool for generating automatic configuration scripts in software projects. |
Autotools | 1.16.5 - 1.16.5 | Suite of tools (Autoconf, Automake, Libtool) for compiling and packaging software. |
Binutils | 2.38 - 2.42 | Collection of binary tools (e.g., |
Bison | 3.8.2 | Parser generator (YACC replacement) for converting grammar rules into code. |
BLIS | 0.9.0 | High-performance BLAS (Basic Linear Algebra Subprograms) library. |
Boost | 1.81-1.82 | Extensive C++ library collection for tasks like multithreading, algorithms, and data structures. |
Brotli | 1.0.9 | Google’s compression algorithm/library for efficient data compression. |
Brunsli | 0.1 | Lossless JPEG repacking library (improves compression). |
bzip2 | 1.0.8 | Compression library and tool for lossless data compression. |
cairo | 1.17.4, 1.17.8, 12.3.0 , 1.18.0 | 2D graphics library supporting vector and raster output (used in GTK, browsers). |
CASTEP | 25.1.1-intel-2024a, 25.1.1-foss-2023b | First-principles quantum mechanics code for materials modeling. |
Catch2 | 2.13.9 | Modern C++ testing framework (header-only, simple syntax). |
cffi | 1.15.1 | Foreign function interface (FFI) for Python to call C code. |
CFITSIO | 4.2.0 - 4.3.1 | Library for reading/writing FITS files (astronomy data format). |
CGAL | 5.6 | Computational Geometry Algorithms Library (C++ templates for geometric operations). |
CMake | 3.24.3 - 3.29.3 | Cross-platform build system generator (replaces Makefiles). |
crytography | 41.0.1, 41.0.5 | Python library for secure cryptographic operations (e.g., encryption, hashing). |
cURL | 7.86.0 - 8.7.1 | Command-line tool and library for transferring data with URLs (supports HTTP, FTP, etc.). |
Cython | 3.0.10 | Python-to-C compiler for writing C extensions in Python-like syntax. |
DB | 18.1.40 | Embedded database library for key-value storage. |
DBus | 1.15.2 - 1.15.4 | Message bus system for inter-process communication (IPC) in Linux. |
double-conversion | 3.3.0 | Library for precise binary-decimal number conversion (used in V8, LLVM). |
Doxygen | 1.9.5 - 1.11.0 | Documentation generator for C++, C, Java, etc. (extracts comments into docs). |
Easybuild | 4.9.1, 5.0.0 | Framework for automating software builds on HPC systems. |
Eigen | 3.4.0 | C++ template library for linear algebra (matrices, vectors, numerical solvers). |
expat | 2.4.8 - 2.6.2 | Stream-oriented XML parser library written in C. |
FFmpg | 6.0 | Multimedia framework for handling audio/video (encoding, decoding, streaming). |
ffnvcodec | 12.0.16.0 | NVIDIA’s hardware-accelerated video codec SDK (for FFmpeg). |
FFTW | 3.3.10 | Fastest Fourier Transform in the West (C library for FFT computations). |
FLAC | 1.4.2 | Free Lossless Audio Codec for compressed audio without quality loss. |
flex | 2.6.4 | Fast lexical analyzer generator (lexical tokenizer, often used with Bison). |
FlexiBLAS | 3.2.1 - 3.4.4 | A flexible BLAS (Basic Linear Algebra Subprograms) wrapper that allows runtime switching between different BLAS implementations. |
flit | 3.9.0 | A simple Python packaging tool for pure-Python modules (alternative to |
fontconfig | 2.14.1 - 2.15.0 | A library for configuring and customizing font access in Linux/Unix systems (used by GUI apps). |
fonttools | 4.53.1 | A Python library for manipulating fonts (e.g., OpenType, TrueType) programmatically. |
foss | 2022b - 2024a | Free and Open Source Software tools |
freeglut | 3.4.0 | An open-source alternative to GLUT (OpenGL Utility Toolkit) for creating OpenGL windows and handling input. |
freetype | 2.12.1 | A widely used library for rendering fonts (supports multiple font formats like TTF, OTF). |
friBidi | 1.0.12 ,1.0.15 | A library for handling bidirectional text (e.g., Arabic, Hebrew mixed with left-to-right languages). |
GCC | 12.2.0 - 13.2.0 | A suite of compilers for C, C++, Fortran, Ada, and other languages. |
GCCcore | 11.3.0 - 13.3.0 | Core GNU Compiler Collection (C/C++/Fortran compilers) without OS dependencies |
GDAL | 3.6.2-foss-2022b | Geospatial Data Abstraction Library for raster/vector geospatial formats |
Gdk-Pixbuf | 2.42.10 | Image loading/manipulation library for GTK+ GUI toolkit |
GEOS | 3.11.1 | Geometry Engine - Open Source (computational geometry library) |
gettext | 0.21.1,0.22.5 | GNU internationalization/i18n framework for multi-language software |
gfbf | 2022b - 2024a | EasyBuild toolchain (GCC + FFTW + BLAS/LAPACK + ScaLAPACK) |
Ghostscript | 10.0.0 | PostScript/PDF interpreter and rendering engine |
giflib | 5.2.1 | Library for reading/writing GIF image format |
git | 2.38.1 - 2.45.1 | Distributed version control system |
GL2PS | 1.4.2 | OpenGL to PostScript/PDF/SVG exporter |
GLib | 2.75.0 - 2.80.4 | Core application building blocks for GNOME (data structures, I/O, threading) |
GLPK | 5.0 | GNU Linear Programming Kit (solver for optimization problems) |
GMP | 6.2.1 | GNU Multiple Precision Arithmetic Library |
gnuplot | 5.4.8 | Command-line driven graphing/plotting utility |
GObject-Introspection | 1.74.0 - 1.90.1 | Middleware for language bindings to C libraries |
gompi | 2022b - 2024a | EasyBuild toolchain (GCC + OpenMPI) |
googletest | 1.12.1 | Google's C++ testing framework |
gperf | 3.1 | Perfect hash function generator |
graphite2 | 1.3.14 | Smart font rendering engine for complex scripts |
groff | 1.22.4 - 1.23.0 | GNU troff document formatting system (man pages) |
GSL | 2.7 | GNU Scientific Library (numerical algorithms) |
GTK3 | 3.24.35 | GIMP Toolkit v3 (GUI widget toolkit) |
gzip | 1.12,1.13 | File compression/decompression utility |
HarfBuzz | 5.3.1, 9.0.0 | Text shaping engine (OpenType font rendering) |
hatchling | 1.18.0 | Modern Python build backend/packaging tool |
HDF | 4.2.15 | Hierarchical Data Format (legacy version) |
HDF5 | 1.12.2 - 1.14.3 | Hierarchical Data Format v5 (data management for large datasets) |
help2man | 1.49.2,1.49.3 | Automated man page generator from --help output |
hwloc | 2.8.0 - 2.10.0 | Portable Hardware Locality (hardware topology mapping) |
hypothesis | 6.68.2 - 6.90.0 | Property-based testing framework for Python |
ICU | 72.1 - 75.1 | International Components for Unicode (i18n/l10n) |
iimpi | 2022a - 2024a | EasyBuild toolchain (Intel compilers + Intel MPI) |
ImageMagick | 7.1.0-53 | Image manipulation/conversion CLI suite |
Imath | 3.1.6 | Math library for computer graphics (originally from ILM) |
imkl-FFTW | 2022.1.0 - 2024.2.0 | Intel Math Kernel Library's FFTW3-compatible interface |
imkl | 2022.1.0 - 2024.2.0 | Intel Math Kernel Library (optimized math routines) |
impi | 2021.6.0 - 2021.13.0 | Intel C/C++/Fortran compilers (icc/icpc/ifort) |
intel-compilers | 2022.1.0 - 2024.2.0 | Meta-module for Intel development tools |
INTEL | 2023.0, 2024.0 | |
intltool | 0.51.0 | Internationalization toolkit for source code |
JasPer | 4.0.0 | JPEG-2000 image codec implementation |
Java | 11.0.20, 17.0.6 | Oracle Java Development Kit/Runtime |
jbigkit | 2.1 | JBIG1 image compression library |
jq | 1.6 | Lightweight JSON processor (CLI tool) |
json-c | 0.16 | JSON library for C applications |
KaHIP | 3.16 | Karlsruhe High Quality Partitioning (graph partitioning) |
LAME | 3.100 | MP3 audio encoder |
LERC | 4.0.0 | Limited Error Raster Compression (geospatial) |
libarchive | 3.6.1 - 3.7.4 | Multi-format archive/library compression |
libcerf | 2.3 | Complex error function library |
libdeflate | 1.15, 1.20 | Fast DEFLATE/zlib/gzip compression |
libdrm | 2.4.114 - 2.4.122 | Direct Rendering Manager library (Linux graphics) |
libepoxy | 1.5.10 | GL dispatch library abstraction |
libevent | 2.1.12 | Asynchronous event notification library |
libfabric | 1.16.1 - 1.21.0 | OpenFabrics Interfaces (high-performance networking) |
libff | 3.4.4, 3.4.5 | Foreign Function Interface library (calling between languages) |
libgd | 2.3.3 | Graphics drawing library (dynamic image creation) |
libgeotiff | 1.7.1 | GeoTIFF GIS metadata handling library |
libgit2 | 1.5.0, 1.8.1 | Portable Git implementation library |
libGLU | 9.0.2, 9.0.3 | OpenGL Utility Library (higher-level graphics helpers) |
libglvnd | 1.6.0, 1.7.0 | Vendor-neutral GL dispatch library |
libiconv | 1.17 | Character encoding conversion library |
libjpeg-turbo | 2.1.4, 2.1.5, 3.0.1 | Accelerated JPEG codec with SIMD support |
libogg | 1.3.5 | Ogg multimedia container library |
libopus | 1.3.1 | Opus audio codec implementation |
libpciaccess | 0.17, 0.18 | Uniform interface to PCI devices |
libpng | 1.6.38 - 1.6.43 | Reference implementation for PNG image format handling |
libreadline | 8.1.2, 8.2 | Interactive command-line editing library (used in bash, Python, etc.) |
libsndfile | 1.2.0 | Audio file I/O library supporting WAV, AIFF, FLAC, OGG, and others |
LibTIFF | 4.4.0, 4.6.0 | Library for reading/writing TIFF image format with metadata support |
libtirpc | 1.3.3 | Transport-independent RPC implementation (SunRPC replacement) |
libtool | 2.4.7 | Generic library support script for building shared libraries portably |
libunwind | 1.6.2, 1.8.1 | Stack unwinding library for exception handling and debugging |
libvorbis | 1.3.7 | Reference implementation of Vorbis audio compression format |
libxml2 | 2.10.3 - 2.12.7 | XML parsing library with DOM, SAX, and XPath support |
libxslt | 1.1.37 | XSLT processing library based on libxml2 |
lit | 18.1.8 | LLVM Integrated Tester (lightweight testing tool) |
LittleCMS | 2.14 | Color management engine (ICC profile handling) |
LLVM | 15.0.5 - 18.1.8 | Compiler infrastructure project (clang, lldb, opt, etc.) |
Lua | 5.4.6 | Lightweight embeddable scripting language |
lz4 | 1.9.4 | Extremely fast lossless compression algorithm |
M4 | 1.4.19 | Macro processor (preprocessor for configure scripts) |
make | 4.3 - 4.4.1 | Build automation tool that executes Makefiles |
Mako | 1.2.4 - 1.3.5 | Python templating library (similar to Jinja2) |
MATLAB | 2025a | Numerical computing environment and proprietary language |
Mesa | 22.2.4 - 24.1.3 | Open-source OpenGL/Vulkan implementation (3D graphics) |
meson-python | 0.15.0 | Python build backend using Meson build system |
Meson | 0.64.0 - 1.4.0 | Modern build system focusing on speed and simplicity |
METIS | 5.1.0 | Graph partitioning and fill-reducing matrix ordering library |
MPFR | 4.2.0 | Multiple-precision floating-point computations library |
NASM | 2.15.05 - 2.16.03 | Netwide Assembler for x86/x64 architectures |
ncurses | 6.3 - 6.5 | Terminal UI library for text-based interfaces |
netCDF-Fortran | 4.6.0, 4.6.1 | Fortran interface to netCDF data format |
netCDF | 4.9.0, 4.9.2 | Network Common Data Format for scientific array data |
nettle | 3.8.1 | Low-level cryptographic library |
Ninja | 1.11.1 | Small build system focused on speed |
nlohmann_json | 3.11.2 | C++ header-only JSON parser/serializer |
NLopt | 2.7.1 | Nonlinear optimization library with C/C++ interfaces |
nodejs | 18.12.1, 18.17.1 | JavaScript runtime built on Chrome's V8 engine |
NSPR | 4.35 | Netscape Portable Runtime (platform abstraction layer) |
NSS | 3.89.1 | Network Security Services (crypto library for browsers) |
numactl | 2.0.14 - 2.0.18 | NUMA (Non-Uniform Memory Access) control utilities |
OpenBLAS | 0.3.21 - 0.3.27 | Optimized BLAS/LAPACK implementation with multi-threading |
OpenEXR | 3.1.5 | High dynamic-range (HDR) image file format by ILM |
OpenFOAM | v2312-foss-2023a | Open-source computational fluid dynamics (CFD) toolkit |
OpenJPEG | 2.5.0 | JPEG 2000 codec implementation |
OpenMPI | 4.1.4 - 5.0.3 | High-performance MPI (Message Passing Interface) implementation |
OpenSSL | 1.1, 3 | Cryptography/TLS toolkit implementing SSL protocols |
Pango | 1.50.12, 1.50.14 | Text layout/rendering library for internationalization |
ParaView | 5.11.2-foss-2023a | Scientific visualization application for large datasets |
patchelf | 0.18.0 | Modify ELF binaries (RPATH, interpreter) |
PCRE | 8.45 | Perl Compatible Regular Expressions library |
PCRE2 | 10.40 - 10.43 | Modern successor to PCRE with improved Unicode support |
Perl-bundle-CPAN | 5.36.1, 5.38.2 | Comprehensive Perl Archive Network modules collection |
Perl | 5.34.1 - 5.38.2 | Practical Extraction and Reporting Language |
pixman | 0.42.2, 0.43.4 | Low-level pixel manipulation library |
pkgconf | 1.8.0 - 2.2.0 | System to manage compile/link flags (pkg-config replacement) |
PMIx | 4.2.2 - 5.0.2 | Process Management Interface for Exascale environments |
poetry | 1.5.1, 1.6.1 | Python dependency management and packaging tool |
PROJ | 9.1.1 | Coordinate transformation library for geospatial data |
protobuf | 23.0 | Protocol Buffers data serialization format (Google) |
PRRTE | 3.0.5 | Reference RunTime Environment for PMIx |
pybind11 | 2.10.3, 2.11.1 | Seamless interoperability between C++ and Python |
Python-bundle-PyPI | 2023.06, 2023.10 | Collection of Python packages from PyPI |
Python | 3.10.8 - 3.12.3 | High-level interpreted programming language |
Qhull | 2020.2 | Convex hull, Delaunay triangulation library |
| Qt5 | 5.15.10 | Cross-platform application framework for GUIs |
| R | 4.2.2-foss-2022b, 4.4.2 | Statistical computing and graphics language |
| re2c | 3.1 | Lexer generator for C/C++ |
| ROOT | 6.26.10, 6.30.06 | Data analysis framework (CERN particle physics) |
| Rust | 1.65.0 - 1.73.0 | Systems programming language focused on safety |
| ScaLAPACK | 2.2.0 | Scalable Linear Algebra PACKage for parallel systems |
| scikit-build | 0.17.6 | Improved build system generator for Python |
| SciPy-bundle | 2023.02 - 2023.11 | Collection of Python scientific libraries |
| SCOTCH | 7.0.3 | Graph partitioning and mesh handling library |
| SDL2 | 2.28.2 | Simple DirectMedia Layer (cross-platform multimedia) |
| setuptools-rust | 1.6.0, 1.8.0 | Rust support for Python setuptools |
| snappy | 1.1.10 | Fast compression/decompression library by Google |
| SQLite | 3.39.4 - 3.45.3 | Embedded relational database engine |
| Szip | 2.1.1 | Lossless data compressor for scientific data |
| Tcl | 8.6.12 - 8.6.14 | Tool Command Language scripting language |
| tcsh | 6.24.07 | C shell with command-line completion |
| time | 1.9 | Command execution timing utility |
| Tk | 8.6.12 - 8.6.14 | GUI toolkit for Tcl |
| UCC | 1.1.0 * 1.3.0 | Unified Collective Communication Library |
| UCX | 1.12.1 - 1.16.1 | Unified Communication X framework for HPC |
| UDUNITS | 2.2.28 | Unit conversion library for physical quantities |
| UnZip | 6.0 | Extraction utility for ZIP archives |
| util-linux | 2.38.1 - 2.40.0 | Collection of Linux system utilities |
| virtualenv | 20.23.1, 20.24.6 | Python environment isolation tool |
| Wayland | 1.23.0 | Display server protocol (modern X11 replacement) |
| WRF | 4.4.1 | Weather Research and Forecasting model |
| X11 | 20221110, 20230603, 20240607 | Core protocol for X Window System |
| x264 | 20230226 | H.264/AVC video encoder |
| x265 | 3.5 | H.265/HEVC video encoder |
| Xerces-C++ | 3.2.4 | XML parser and toolkit for C++ |
| xorg-macros | 1.19.3 - 1.20.1 | GNU autoconf macros for X.Org development |
| Xvfb | 21.1.6 | X server in virtual framebuffer memory |
| XZ | 5.2.7 - 5.4.5 | Lossless data compression with LZMA algorithm |
| Yasm | 1.3.0 | Modular assembler for x86 optimization |
| zlib | 1.2.12, 1.2.13, 1.3.1 | Compression library (DEFLATE algorithm) |
| zstd | 1.5.2 - 1.5.6 | Fast real-time compression algorithm |
Bio
Name | Version: Default (Others) | Description |
|---|---|---|
MPIBLAST | 1.6.0 | open-source, parallel implementation of NCBI BLAST. BLAST finds regions of similarity between biological sequences. |
GPU-BLAST | 1.1 | an accelerated GPU version of the popular NCBI-BLAST. | BLAT | 35:: The BLAST-Like Alignment Tool |
MrBayes | 3.2.1 | a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models |
BEAST | 1.7.5 | cross-platform program for Bayesian MCMC analysis of molecular sequences. Uses BEAGLE. |
MIRA | 3.4.0.1 | whole genome shotgun and EST sequence assembler for Sanger, 454, Solexa (Illumina), IonTorrent data and PacBio (the later at the moment only CCS and error-corrected CLR reads). |
BEDTOOLS | 2.17.0 | allow one to address common genomics tasks such as finding feature overlaps and computing coverage. |
BEST | 2.3.1 | a phylogenetics program to estimate the joint posterior distribution of gene trees and species tree using multilocus molecular data that accounts for deep coalescence but not for other issues such as horizontal transfer or gene duplication |
BIOPERL | 1.6.1 | a community effort to produce Perl code which is useful in biology. | NETLOGO | 5.3(also 5.2.1) |
PAML | 4.6 | package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. |
PARTITIONFINDER | 1.0.1 | Free open source programs for selecting best-fit partitioning schemes and models of molecular evolution for nucleotide and amino acid alignments. |
PICARD_TOOLS | 1.79 | Java-based command-line utilities that manipulate SAM (Sequence Alignment/Map) files, and a Java API (SAM-JDK) for creating new programs that r&w SAM files |
PINDEL | 0.2.4d | detects breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. |
BOWTIE | 2.0.2 | an ultrafast, memory-efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. |
PROTTEST | 3.2 | bioinformatic tool for the selection of best-fit models of aminoacid replacement for the data at hand. |
PhyML | 20120412 | estimates maximum likelihood phylogenies from alignments of nucleotide or amino acid sequences. |
BWA | 0.6.2 | for aligning sequencing reads against a large reference genome (e.g. human genome). |
PhyloBayes | 3.3e | is a Bayesian Monte Carlo Markov Chain (MCMC) sampler for phylogenetic reconstruction |
RAxML | 7.3.1 | implements the popular RAxML search algorithm for maximum likelihood based inference of phylogenetic trees. It uses a radically new MPI parallelization approach that yields improved parallel efficiency, in particular on partitioned multi-gene or whole-genome datasets. |
FASTQC | 0.10.1 | A quality control tool for high throughput sequence data. |
SAMTOOLS | 0.1.18 (also 1.3 and 1.5) | provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format. |
GATK | 2.2-8 | The Genome Analysis Toolkit or GATK is a software package developed at the Broad Institute to analyse next-generation resequencing data. |
SOAPdenovo | 1.05 | novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes. The program is specially designed to assemble Illumina GA short reads. |
HMMER | 3.0 (also 2.3.2-MPI-0.92, GPU-0.92) | is used for searching sequence databases for homologs of protein sequences, and for making protein sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs) |
TOPHAT | 2.0.6 | is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to mammalian-sized genomes using the ultra high-throughput short read aligner Bowtie and then analyzes the mapping results to identify splice junctions between exons. |
TRINITY_RNA_SEQ | r2012-06-08 | implements a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. |
INTERPROSCAN | 5-RC4 | allows you to scan your sequence for matches against the InterPro collection of protein signature databases. | JMODELTEST | 2.1.1 | a tool to carry out statistical selection of best-fit models of nucleotide substitution