Software List

Neon HPC Cluster Software - Coming Soon

Helium HPC Cluster Software

ProgramLink to Main Page
afnihttp://afni.nimh.nih.gov/
Ansyshttp://www.ansys.com/
autodocksuitehttp://autodock.scripps.edu/
clustalwhttp://www.clustal.org/
EMBOSShttp://emboss.sourceforge.net/
fastahttp://fasta.bioch.virginia.edu/fasta_www2/fasta_list2.shtml
genetorrenthttps://cghub.ucsc.edu/software/downloads.html
glimmerhttp://cbcb.umd.edu/software/glimmer/
gmaphttp://greatmaps.codeplex.com/
gromacshttp://www.gromacs.org/
hmmerhttp://selab.janelia.org/people/eddys/blog/
mpiblasthttp://www.mpiblast.org/
mrbayeshttp://mrbayes.sourceforge.net/
ncbihttp://www.ncbi.nlm.nih.gov/
phyliphttp://evolution.genetics.washington.edu/phylip.html
tcoffeehttp://www.tcoffee.org/Projects/tcoffee/#SERVERS
tigrhttp://www.tm4.org/mev/
birndg 
blathttp://www.blat.net/
brains2 
BRAINSLesion_Linux32_20090325http://www.nitrc.org/search/?type_of_search=group&cat=498:BRAINS+License
CASAVA_v1.8.2http://www.illumina.com/software/genome_analyzer_software.ilmn
chkrootkithttp://chkrootkit.org/
cmake-2.8.3-Linux-i386http://www.cmake.org/
cmake-2.8.4-Linux-i386http://www.cmake.org/
confusehttp://savannah.nongnu.org/
crossbow-1.0.4http://bowtie-bio.sourceforge.net/crossbow/index.shtml
crystal09http://www.crystal.unito.it/
cufflinks-1.0.3.Linux_x86_64http://cufflinks.cbcb.umd.edu/
dicom3toolshttp://www.dclunie.com/dicom3tools.html
fftw2http://www.fftw.org/
FFXhttp://ffx.kenai.com/
fipshttp://www.tucows.com/preview/8236
freesurfer_v4.5.0-fullhttps://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferWiki
fslhttp://www.fmrib.ox.ac.uk/
g09http://www.gaussian.com/index.htm
githttp://git-scm.com/
gmp-5.0.1http://gmplib.org/
GTRACThttp://www.nitrc.org/
hmmer-3http://hmmer.janelia.org/
ImageJhttp://rsbweb.nih.gov/ij/
infernalhttp://infernal.janelia.org/
intelhttp://software.intel.com/en-us/intel-sdp-home/
·   Compiler-11.1http://software.intel.com/en-us/articles/intel-compilers/
·  Compiler-2013-2.146http://software.intel.com/en-us/intel-composer-xe
·   ictce-4.0.0.020https://dvinfo.ifh.de/IntelClusterToolkit
·   imb-3.2.1http://software.intel.com/en-us/articles/intel-compilers/
·   impi-4.0.0.028http://software.intel.com/en-us/
·   itac-8.0.0.011http://software.intel.com/en-us/articles/intel-compilers/
·   mkl-10.2.5.035http://software.intel.com/en-us/articles/intel-math-kernel-library-intel-mkl-intel-mkl-100-threading/
·  mkl-2013-2.146http://software.intel.com/en-us/intel-composer-xe
iozonehttp://www.iozone.org/
iperfhttp://iperf.sourceforge.net/
java3d-1_5_2http://download.java.net/media/java3d/builds/release/1.5.2/README-download.html
kent 
lamphttps://help.ubuntu.com/community/ApacheMySQLPHP
lastzhttp://www.bx.psu.edu/~rsharris/lastz/
Matlabhttp://www.mathworks.com/products/matlab/
mclhttp://www.koders.com/
merlinhttp://www.lambdassociates.org/merlin.htm
metis-4.0http://glaros.dtc.umn.edu/gkhome/
mpfr-3.0.0http://glaros.dtc.umn.edu/gkhome/
NAMDhttp://www.ks.uiuc.edu/Research/namd/
NCOhttp://nco.sourceforge.net/
netcdfhttp://www.unidata.ucar.edu/data/
NWChemhttp://www.nwchem-sw.org/index.php/Main_Page
OpenFOAMhttp://www.openfoam.com
OCamlhttp://caml.inria.fr/ocaml/index.en.html
openmpihttp://www.open-mpi.org/
orcahttp://www.thch.uni-bonn.de/tc/orca/
ortheushttp://hgwdev.cse.ucsc.edu/~benedict/code/Ortheus.html
paraviewhttp://paraview.org
pDynamohttps://sites.google.com/site/pdynamomodeling/
petcorr_worsley 
plink-1.07-x86_64http://pngu.mgh.harvard.edu/~purcell/plink/download.shtml
Python-2.6.4http://www.python.org/
Python-2.7.3http://www.python.org/
qtsdk-2010.05http://qt.nokia.com/
Rhttp://www.r-project.org/foundation/main.html
·   2.8.0http://www.r-project.org/foundation/main.html
·   2.10.1http://www.r-project.org/foundation/main.html
·   2.11.1http://www.r-project.org/foundation/main.html
rc1brains2_20100618http://www.afreecodec.com/windows/brain-2-10141.html
rsl-v1.40http://www.globus.org/
samtoolshttp://sourceforge.net/projects/samtools/
Slicer3-3.4.2-2010-01-06-linux-x86_64http://www.slicer.org/
stream 
Tecplot 360http://www.tecplot.com/products/tecplot-360
toolworkshttp://www.scitools.com/
totalview.8.8.0-1http://www.roguewave.com/company/news-events/press-releases/2012/totalview-8.10.aspx
turbomole63http://cacheresearch.com/home.html
valgrindhttp://valgrind.org/
ViennaRNAhttp://mafft.cbrc.jp/alignment/software/