name about category URL
R free software environment for statistical computing and graphics Data Analysis
alsa Advanced Linux Sound Architecture Libraries
amber assisted model building with energy refinement Molecular Biology
amira a powerful, multifaceted 3D software platform for visualizing, manipulating, and understanding biomedical data coming from all types of sources and modalities Graphics
amunmt fast neural machine translation in C++ Computer Science
anaconda scientific Python distribution Programming Tools
anaconda3 scientific Python distribution Programming Tools
ant Java Library and Command Line Tool for building packages Programming Tools
astrobear Collection of libraries used by astrobear Libraries
atom a hackable text editor Accessories
bazel correct, reproducible, and fast builds for everyone Programming Tools
beacon automated tool for Bacterial gEnome Annotation ComparisON Bioinformatics
boost portable C++ source libraries Libraries
bowtie2 ultrafast memory-efficient short read aligner Bioinformatics
c3d deep learning framework Computer Science
caffe deep learning framework Computer Science
cdf common data format Libraries
cmake open-source, cross-platform family of tools designed to build, test, and package software System Tools
cuda CUDA software development kit Programming Tools http://developer.nvidia/com
cudnn GPU-accelerated library for deep neural networks Programming Tools
cufflinks transcript assembly, differential expression, and differential regulation for RNA-seq Bioinformatics
deeptools tools for exploring deep sequencing data Bioinformatics
digits Deep Learning GPU Training System Computer Science
eigen C++ template library for linear algebra Libraries
elmer Elmer is an open source multiphysical simulation software mainly developed by CSC - IT Center for Science (CSC) Physics
fastqc quality control tool for high throughput sequence data Bioinformatics
ffmpeg cross-platform solution to record, convert, and stream audio and video Libraries
fftw3 FFTW3 library for computing the discrete Fourier transform (DFT) Libraries
firefox web browser Internet
gaussian quantum chemistry Chemistry
gcc GNU compiler collection Programming Tools
geneious bioinformatics tools Bioinformatics
gflags command line flags processing Programming Tools
ghc Glasgow Haskell Compiler Programming Tools
git distributed version control system Programming Tools
globus-cli A Command Line Interface to Globus Internet
glog google logging module Programming Tools
gnuplot portable command-line driven graphing utility Graphics
gperf perfect hash function generator System Tools
gromacs molecular dynamics Molecular Biology
gstreamer library for constructing graphs of media-handling components Libraries
hdf4 a library and multi-object file format for storing and managing data between machines Libraries
hdf5 data model, library, file format for storing and managing data Libraries
hdfviewer HDF file viewer System Tools
hypre a library for solving large, sparse linear systems of equations on massively parallel computers Libraries
idl scientific programming language Data Analysis
igv integrative genomics viewer Bioinformatics
impi Intel MPI Programming Tools
intel Intel Parallel Studio XE Cluster Edition for Linux Programming Tools
intelpython Intel Python Programming Tools
intelpython3 Intel Python Programming Tools
jdk Java Development Kit Programming Tools
jre Java Runtime Environment Programming Tools
julia high-level, high-performance dynamic programming language Programming Tools
jupyter Python programming language Programming Tools
jupyterhub Python programming language Programming Tools
kenlm estimates, filters, and language models Libraries
lapack linear algebra Libraries
leveldb lightweight single purpose library for persistence with bindings Data Analysis
libav libraries for dealing with multimedia formats Libraries
lmdb lightning memory-mapped database manager Programming Tools
mathematica computation, symbolic mathematics, and visualization Mathematics
matlab MATLAB (matrix laboratory) is a multi-paradigm numerical computing environment and fourth-generation programming language Mathematics
meshlab open source system for processing and editing 3D triangular meshes Graphics
mgiza A word alignment tool based on famous GIZA++, extended to support multi-threading, resume training and incremental training Computer Science
molcas ab initio quantum chemistry software package Chemistry
netcdf software libraries and self-describing, machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data Libraries
netlogo multi-agent programmable modeling environment Programming Tools
nodejs Event-driven I/O server-side JavaScript environment based on V8 System Tools
openblas optimized BLAS library Libraries
opencv open source computer vision library Graphics
openmpi high performance message passing library Programming Tools
oracle Oracle instant client Libraries
pandoc universal document converter Accessories
paraview an open-source, multi-platform data analysis and visualization application Graphics
perl Perl programming language Programming Tools
pgadmin3 PGAdmin3 Postgresql database client Programming Tools
pgplot plotting library for fortran Libraries
protobuf protocol buffers - google data interchange format Programming Tools
pyslurm PySlurm Programming Tools
pysox audio manipulation for python Libraries
python Python programming language Programming Tools
python3 Python programming language Programming Tools
qt cross-platform application and UI framework for developers using C++ or QML Libraries
r free software environment for statistical computing and graphics Data Analysis
ragel executable finate state machines System Tools
reapr evaluates the accuracy of a genome assembly using mapped paired end reads Bioinformatics
rmats multivariate analysis of transcript splicing Bioinformatics
rstudio open source and enterprise-ready professional software for R Data Analysis
samtools utilities for sequence alignment Bioinformatics
sas data management Data Analysis
sbt build tool for Scala, Java, and more Programming Tools
scala an object-functional programming and scripting language for general software applications Programming Tools
scons software construction tool Programming Tools
silo library for reading and writing a wide variety of scientific data to binary files Libraries
slurm SLURM Software System Tools
snappy fast compressor/decompressor System Tools
sox swiss army knife of sound processing utilities Libraries
spark a fast and general-purpose cluster computing system System Tools
sparsehash extremely memory-efficient hash_map implementation Programming Tools
sratoolkit access data from sequence read archive Bioinformatics
tensorflow computation using data flow graphs Computer Science
texlive TeX document production system Accessories
tmux terminal multiplexer System Tools
tophat fast splice junction mapper for RNA-Seq reads Bioinformatics http://tophat.cbcb.umd.edi
torch scientific computing framework for luajit Programming Tools
tree list contents of directories in a tree-like format System Tools
vdjer B Cell Receptor Repertoire Reconstruction from short read mRNA-Seq data Bioinformatics
virtualgl OpenGL interposer that allows applications to use remote display hardware Libraries
visit Open Source, interactive, scalable, visualization, animation and analysis tool Graphics
vmd visual molecular dynamics Graphics
wxpython a blending of the wxWidgets C++ class library with the Python programming language Libraries
yaml human friendly data serialization standard for all programming languages Programming Tools
zmq ZeroMQ lightweight messaging kernel Libraries