Difference between revisions of "Installed Software"

From UFRC
Jump to navigation Jump to search
Line 71: Line 71:
 
|-
 
|-
 
| [[mafft]] || 6.859 || [http://mafft.cbrc.jp/alignment/software/ MAFFT Home Page]
 
| [[mafft]] || 6.859 || [http://mafft.cbrc.jp/alignment/software/ MAFFT Home Page]
 +
|-
 +
| [[MACS]] || 1.4.1 || [http://liulab.dfci.harvard.edu/MACS/ MACS Home Page]
 
|-
 
|-
 
| [[Matlab]] || 2009b || [http://www.mathworks.com www.mathworks.com]
 
| [[Matlab]] || 2009b || [http://www.mathworks.com www.mathworks.com]
Line 95: Line 97:
 
|-
 
|-
 
| [[papi]] || 4.1.2.1 ||  
 
| [[papi]] || 4.1.2.1 ||  
 +
|-
 +
| [[PeakSplitter]] || 1.0 || [http://www.ebi.ac.uk/bertone/software.html Upstream sofware page]
 
|-
 
|-
 
| [[pdt]] || 3.16 ||
 
| [[pdt]] || 3.16 ||

Revision as of 15:32, 11 September 2011

The following is a list of the installed software packages maintained at the UF HPC Center.

List updated 15 June 2011.

Software

Software Version Home Website
Abaqus 6.6-1, 6.9-2
ADMB 9.1, 10.0 admb-project.org
Amber 10,11.old, 11 amber.scripps.edu
Amos 3.0.0 AMOS SourceForge
Ansys 10.0 www.ansys.com
antlr 3.1.3 http://www.antlr.org/
arachne 37618
bioscope 1.0.1, 1.2.1
Blast 2.2.24
Boost 1.37.0, 1.46.1
Bowtie 0.12.7 http://bowtie-bio.sourceforge.net/
Charmm 35b2
Circuit  
CPMD 3.11.1 www.cpmd.org
Crystal 1.0.2  
Cufflinks 1.0.3 http://cufflinks.cbcb.umd.edu/
dar 2.3.9
denovo 2.5.3, 2.6
Desmond 2.4.2.1 www.deshawresearch.com/resources_desmond.html
dlpoly 3.0.9 www.cse.clrc.ac.uk
dock 6.3, 6.4 dock.compbio.ucsf.edu
emboss 6.4.0 emboss.sourceforge.net
espresso 3.0, 3.2.2, 4.0.4
fftw 2.1.5, 3.1.2 www.gaussian.com
fluent 6.3.26
gadget 2.0.4, 2.0.5
gaussian 03,09 www.gaussian.com
Gromacs 4.0.4, 4.0.7 www.gromacs.org
hypre 2.0.0 Lawrence Livermore National Labs
Inelastica 1.1
IE3D 15.1
madness  
mafft 6.859 MAFFT Home Page
MACS 1.4.1 MACS Home Page
Matlab 2009b www.mathworks.com
meep 0.10.0, 0.20.3
meme 3.0.13, 4.3.0
metis 4.0 glaros.dtc.umn.edu
mira 3.2.0
MrBayes 3.1.2 mrbayes.scs.fsu.edu
NAMD 2.7b2 www.ks.uiuc.edu
netcdf 3.6.3, 4.1.2
Newbler 2.5.3, 2.6
NWChem 6.0 http://www.nwchem-sw.org
OpenFOAM 1.7.1
papi 4.1.2.1
PeakSplitter 1.0 Upstream sofware page
pdt 3.16
petsc 2.3.3-p8, 3.0.0-p12
pqs 3.3-19
pyopencl 0.92
python 2.5.1, 2.6.4, 2.6.5
RAxML 7.3.0 RAxML
RAxML-Light 1.0.5 RAxML
RepeatMasker 3.3.0 Repeat Masker
Rosetta 2.1.1, 2.1.2 www.rosettacommons.org
rsm 2961
samtools 0.1.16 http://samtools.sourceforge.net/
SAS 9.1, 9.2, 9.3 SAS
Siesta 2.0, 2.0.2, 3.0b www.uam.es
Stata 10 Stata
tau 2.20.1
TRF 4.04 Tandem Repeats Finder
Tophat 1.3.0 http://tophat.cbcb.umd.edu/
tuxedo The "tuxedo suite," Bowtie, Tophat, and Cufflinks
VASP 4.6.34,5.2.0 cms.mpi.univie.ac.at
velvet 1.1.05 www.ebi.ac.uk/~zerbino/velvet/
vmd 1.9
weka 3.6.2
wublast 2.0 WU-Blast WU-BLAST Readme file
  • Many versions available. /scratch/hpc/osg/app/etc/grid3-locations.txt may have an up-to-date list. Or look underneath /scratch/hpc/osg/app/cmssoft.
Retrieved from "https://help.rc.ufl.edu/mediawiki/index.php?title=Installed_Software&oldid=4975"