anaconda2Anaconda 2 python distribution
caffe-bvlcFast open framework for deep learning (BVLC upstream)
caffe-ibmFast open framework for deep learning (BVLC upstream) with optimizations made by IBM
caffe-nvFast open framework for deep learning (NVIDIA's fork)
chainerA flexible framework of neural networks for deep learning
cudaNVIDIA CUDA Toolkit (C, C++, cuda-gdb, cuda-memcheck, gpu accel)
digitsDeep Learning GPU Training System
gccGNU Compiler Collection (C, C++, Fortran), GNU Compiler Collection (C, C++, Fortran, Go)
mpichOSU MPI
ncclNVIDIA Collectives Communication Library (NCCL) Runtime
openblasOpenBLAS is an optimized BLAS library based on GotoBLAS2 1.13 BSD version.
spectrummpiIBM spectrum MPI for power8
tensorflowOpen source software library for numerical computation
theanoOptimizing compiler for evaluating mathematical expressions on CPUs and GPUs
torchTorch 7 | Scientific computing framework for LuaJIT
AnacondaAnaconda python distribution, Anaconda python distribution with TensorFlow 1.7 and Pytorch
Anaconda2Anaconda python distribution, python version 2.7
Anaconda3Anaconda python distribution, python version 3.5
CGALThe Computational Geometry Algorithms Library is a C++ library that aims to provide easy access to efficient and reliable algorithms in computational geometry.
CLAPACKLAPACK linear algebra routines in C
JAGSJust Another Gibbs Sampler (JAGS)
LBPMLattice Boltzmann simulator
OpenFOAMOpen source CFD package
RR For Statistical Computing
R-gpuGPU packages for R
R-parallelParallel packages for R
ViennaCLSet of header files for GPU support
abaqusAbaqus Research Edition
abinitABINIT 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.
abyssAssembly By Short Sequences - a de novo, parallel, paired-end sequence assembler
allpathslgAssembly By Short Sequences - a de novo, parallel, paired-end sequence assembler
amberAMBER Molecular Dynamics Simulations Software Package
ansysEngineering simulation software
ansysEMElectromagnetics simulation software
apbs-staticAdaptive Poisson Boltzmann Solver
atlasATLAS Tuned Linear Algebra (includes LAPACK)
autodocksuiteAutomated molecule docking tool
automakeautomake tools
bamtoolsBAMTools provides both a programmer's API and an end-user's toolkit for handling BAM files.
bedtoolsBedtools is a fast, flexible toolset for genome arithmetic.
boostBOOST template libraries
boost-mpiBOOST template libraries
bowtieShort read aligner
bowtie2Bowtie 2 Fast and Sensitive Read Alignment
bwaBurrows-Wheeler Aligner
cddlibCDD library for fundamental polyhedral computations
cmakeCross Platform Makefile Generator
coraCORA (CORrelation and Analysis) provides an objective evaluation of time-history signal
cudnncuDNN | GPU-accelerated library for deep neural networks
cufflinksTranscriptome assembly and differential expression analysis for RNA-Seq.
cytoscapeCytoscape - Network Data Integration, Analysis, and Visualization in a Box
dcwGeography Database
diamondSequence Alignment Tool
discovarnew genome assembler
discovardenovonew genome assembler
ea-utilsEA-utils are command line tools for processing biological sequencing data.
eigenEigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms.
ensightCSM and CFD Post processing
espressonanoscale material modeling
examlExascale Maximum Likelihood (ExaML)
extraeInstrumentation framework to generate execution traces of the most used parallel runtimes.
fastqcFastQC - A quality control tool for high throughput sequence data.
fftwFastest Fourier Transform in the West
flannFLANN is a library for performing fast approximate nearest neighbor searches in high dimensional spaces.
flintFast Library for Number Theory
gamit-globkGPS measurement analysis software
gatbGenome Assembly and Analysis Tool Box
gatkThe Genome Analysis Toolkit or GATK is a software package developed to analyze high-throughput sequencing data.
gaussianGaussian 09 provides state-of-the-art capabilities for electronic structure modeling.
gdalGeospatial Data Abstraction Library
gdkNVIDIA GPU Deployment Kit
geosGEOS (Geometry Engine - Open Source) is a C++ port of the Java Topology Suite (JTS).
gflagsGoogle command line flags
glmOpenGL Mathematics
glogGoogle Logging Library
gmap-gsnapGMAP/GSNAP 2017-01-10
gmsh3D finite element grid generator with a build-in CAD engine and post-processor
gnuplotGNU Plot
graphvizGraphviz is open source graph visualization software.