Applications

Applications installed on ALICE and SPECTRE. This list is not exhaustive and does not include common Linux utilities.

Application versions

Both ALICE and SPECTRE use Scientific Linux 6.

Generally there is a module available for each item in the list. Use the module command to see which versions of an application are available, for example for Fluent:

> module avail fluent
--------------------- /cm/shared/modulefiles ------------------
fluent/13.0

Some applications have been built multiple times to suit the compilers available on the system. For example NetCDF has been built for the GCC and Intel. A module exists for each one so you can choose the most appropriate.

Install an application

If you need to install an application on ALICE and SPECTRE, contact the IT Service Desk.

List of applications

You can find more information about the applications by following the links in the tables below.  The links on the application names go to documentation at the University of Leicester. Links on the supplier names go to the supplier’s website.

A

Software
Version
Module
Licence
Supplier
Description
ABySS 1.5.2
1.3.7
1.3.6
abyss/1.5.2
abyss/1.3.7
abyss/1.3.6
Free Canada's Michael Smith Genome Science Centre De novo paired-end short sequence assembler
abinit
7.6.2
7.2.2
abinit/7.6.2
abinit/7.6.2gpu
abinit/7.2.2
Free/OSS
The ABINIT Group Molecular dynamics simulation
Acrobat Reader
9.5.5

Free
Adobe
PDF viewer
Affymetric Power Tools 1.16.1 affymetrix/1.16.1 Free/OSS Affymetrix, Inc. Tools for Affymetrix GeneChip arrays
Aladin 8.040 aladin/8.040 Free/OSS Centre de Données astronomiques de Strasbourg Sky atlas
ALLPATHS-LG 48894 allpathslg/48894 Free/OSS Broad Institute Whole genome shotgun assembler
almost
1.0.4
almost/1.0.4
Free/OSS
Andrea Cavalli
Molecular simulation toolkit
AMOS
3.1.0
amos/3.1.0
Free/OSS
AMOS Team
Genetic assembly framework
Amber
12
amber/12
Site licence
Ambermd.org
Amber molecular dynamics package
APT 22.4.1
22.2
22.0

21.4.1
21.2.3

apt/22.4.1
apt/22.2
apt/22.0
apt/21.4.1
apt/21.2.3
Free/OS
Space Telescope Science Institute
Astronomer's proposal tool for HST and JWST
ARB
5.1 (6213)
arb/5.1-6213
Free/OSS
Lehrstuhl für Mikrobiologie Sequence visualisation

B

Software
Version
Module
Licence
Supplier
Description
bcrypt
1.1
bcrypt/1.1
Free/OSS
Johnny Shelley
Blowfish encryption/decryption
BEAST/BEAGLE 1.8.0 beast/1.8.0 Free/OSS BEAST team Bayesian analysis of molecular sequences
BEAT
6.7.0
beat/6.7.0
Free/OSS
S & T
Basic Envisat Atmospheric Toolbox
bedtools
2.17.0
bedtools/2.17.0
Fress/OSS
Aaron Quinlan Flexible suite of utilities for comparing genomic features
BioPerl
1.6.1
bioperl/1.6.1
Free/OSS
Open Bioinformatics Foundation
Perl packages for bioinformatics
Biopython 1.6.3 biopython/1.63 Free/OSS Biopython team Biological computation tools 
blas March 2007
blas/gcc/64/1
blas/intel/64/1
Free/OSS Netlib
Basic Linear Algebra Sub-programs
BLAST+
2.2.28
blast+/2.2.28
Free NCBI C++ Implementation of BLAST
Boost
1.55.0
1.53.0

boost/1.55.0
boost/1.53.0

Free/OSS

Boost Community
C++ libraries  

BWA
0.7.5a
bwa/0.7.5a
Free/OSS
BWA Team
Burrows-Wheeler Aligner

C

Software
Version
Module
Licence
Supplier
Description
Cadaver
0.22.3

Free/OSS
Cadaver team
WebDAV client
CFITSIO

3.370
3.360

cfitsio/3.370
cfitsio/3.360

Free/OSS NASA GSFC C routines for FITS files
CIAO
4.6

ciao/ciao-4.6

Free/OSS
Chandra team
Chandra X-ray Data Analysis Software (includes CALDB)  
Circos 0.64 circos/0.64 Free/OSS Martin Krzywinski Circular visualisation
Clustal 20141113 clustal/20141113 Free/OSS University College Dublin Tools for multiple alignment of nucleic acid and protein sequences: clustalw, clustalx, clustalo
cmake 2.8.10.2
cmake/2.8.10.2 Free/OSS Kitware Make system
CNS
1.3
cns/1.3
Free/OSS
CNS team
Crystallography and NMR system
CODA 2.5
2.2
coda/2.5
coda/2.2
Free/OSS ESA
Python EOS Toolbox
COPEread 1.1.3 coperead/1.1.3 Free/OSS COPEread team Connecting Overlapped Pair-End reads tools
Cufflinks 2.1.1 cufflinks/2.1.1 Free/OSS Cufflinks team Transcript assembly, differential expression, and differential regulation for RNA-Seq
cutadapt 1.2.1 cutadapt/1.2.1 Free/OSS Marcel Martin High-throughput sequence data cutter

D

Software
Version
Module
Licence
Supplier
Description
DISCOVAR de novo 51380 discovar/51380 Free/OSS Broad Institute De novo genome assembler
doxygen1
1.6.1

Free/OSS Dimitri van Heesch Source code documentation system
DS9 7.3.2
7.2
ds9/7.3.2
ds9/7.2
Free/OSS Smithsonian Astrophysical Observatory Astronomical imaging and data visualization

E

Software
Version
Module
Licence
Supplier
Description
EMBOSS
6.6.0
emboss/6.6.0
Free/OSS
EMBOSS
Molecular Biology software suite. Includes Jemboss 1.5
ENVI
4.7
envi/4.7
200 licences
ITT
Geospatial imagery analysis
exonerate
2.2.0a
exonerate/2.2.0a
Free/OSS
Guy Slater
Pairwise sequence comparison / alignment tool

F

Software
Version
Module              
Licence
Supplier
Description
FASTA
3.6
fasta/3.6
Free/OSS
University of Virginia
Protein / DNA search tool
FastQC 0.11.2
0.10.1
fastqc/0.11.2
fastqc/0.10.1
Free/OSS Babraham Institute Quality control tool for high-throughput sequence data
FASTX-Toolkit
0.0.13
fastx_toolkit/0.0.13
Free/OSS Assaf Gordon + contributors
Short-Reads FASTA/FASTQ preprocessing
fcGENE 1.0.7 fcgene/1.0.7 Free/OSS IMISE Genotype data conversion
FCM 2014-02 fcm/2014-02 Free/OSS Met Office
Source code build / management tools 
Fermi Tools
9.33.0
9.32.5
9.31.1
fermi/9.33.0
fermi/9.32.5
fermi/9.31.1
Free/OSS Goddard Space Flight Centre Fermi gamma ray telescope analysis tools
Ferret
6.84
ferret/6.84
Free/OSS
NOAA/OAR/PMEL Data visualisation
FFTW2 2.1.5 fftw2/openmpi/gcc/64/double/2.1.5
fftw2/openmpi/gcc/64/float/2.1.5
Free/OSS FFTW Discrete fourier/cosine/sine transform library
FFTW3 3.3.3 fftw3/openmpi/gcc/64/3.3.3 Free/OSS FFTW Discrete fourier/cosine/sine transform library
FinchTV
1.3.1
finchtv/1.3.1
Free
Geospiza, Inc.
DNA sequence trace viewer
Firefox
24.0

Free/OSS
Mozilla Foundation
Web browser
FL (Fawlty Language)
0.79a
fl/0.79a
Free/OSS
Lajos Földy IDL clone
Fluent
15.0
13.0
fluent/15.0
fluent/13.0
25 users
ANSYS
CFD
FreeBayes 9.9.2-43 freebayes/9.9.2-43 Free/OSS Erik Garrison, Gabor Marth Bayesian haplotype-based polymorphism discovery and genotyping

G

Software
Version
Module
Licence
Supplier
Description
G95
0.93
g95/0.93
Free/OSS
The G95 Project
Fortran 95 compiler
GATE 6.2.0 gate/6.2.0 Free/OSS OpenGATE Collaboration Medical imaging simulator
GATK

3.2-2
2.7-2
2.6-5

gatk/3.2-2
gatk/2.7-2
gatk/2.6-5
Free - restricted Broad Institute Genome Analysis Toolkit
Gauss
12.1
12
11
gauss/gauss12.1
gauss/gauss12
gauss/gauss11
6 Users
Aptech
Mathematical and statistical data analysis environment
Gauss Runtime
12.1
12
11
gauss/gaussruntime12.1
gauss/gaussruntime12
gauss/gaussruntime11
Free Aptech
Gauss Runtime for compiled Gauss Code
Gaussian g03e01 gaussian/g03e01 Restricted Gaussian, Inc. Electronic structure modelling
GCC (GNU Compiler Collection)
4.8.1
4.7.3
gcc/4.8.1
gcc/4.7.3
Free/OSS
GNU
C/C++/Fortran compilers
GDAL
1.10.1 gdal/1.10.1 Free/OSS
Frank Warmerdam / GDAL developers
Translator library for raster geospatial data formats
GDB (Gnu Debugger)
7.2

Free/OSS
GNU
Program debugger
GDL (GNU Data Language)
0.9.4
0.9.3
gdl.0.9.4
gdl/0.9.3
Free/OSS
GNU
IDL clone
GHC
7.6.3
ghc/7.6.3
Free/OSS
Glasgow University
The Glasgow Haskell Compiler
Ghostview
3.7.1

Free/OSS
Ghostscript team
PostScript viewer
Ghostscript
8.70
Free/OSS
Ghostscript Team
PostScript interpreter
gifsicle
1.60

Free/OSS
Eddie Kohler
Animated GIF creator
git
1.7.1

Free/OSS
Git
Version control software
Glimmer
3.02
glimmer/3.02
Free/OSS University of Maryland
Genetics
gnuplot
4.2.6

Free/OSS
Gnuplot team
Data visualisation
Grace
5.1.23
grace/5.1.23
Free/OSS
Grace team
Data visualisation
GROMACS
4.6.2
gromacs/4.6.2
Free/OSS

Molecular dynamics
GSL (GNU Scientific Library)
1.16
gsl/1.16
Free/OSS
GNU
Scientific library for C/C++.
GTOOL
0.7.5
gtool/0.7.5
Free
University of Oxford
Genotype transform tool

H

Software
Version
Module                    
Licence
Supplier
Description
HDF5
1.8.11
1.6.10

hdf5/gcc/1.8.11
hdf5/intel/1.8.11
hdf5/1.6.10

Free/OSS
HDF Group
Data model library
HDF4
4.2.9
hdf4/gcc/4.2.9
hdf4/intel/4.2.9
Free/OSS HDF Group
HEASoft
6.16
6.15.1
6.15
6.14

heasoft/6.16
heasoft/6.15.1
heasoft/6.15
heasoft/6.14

Free/OSS
NASA / HEASARC
X-Ray Astronomy / FITS file tools 

I

Software
Version
Module                              
Licence
Supplier
Description
IDL
8.2.3
8.0
7.0
idl/idl82
idl/idl80
idl/idl70
Restricted
ITT VIS
Data analysis programming language
IDL Astronomy User's Library

2015-05-30
2014-01-14
2013-11-05
2013-10-29

idlastro/20140530
idlastro/20140114
idlastro/20131105
idlastro/20131029
Free / BSD 2
NASA Goddard Space Flight Center
Low-level IDL astronomy software 
IGV 2.3.18
2.0.15
igv/2.3.18
igv/2.0.15
Free/OSS Broad Institute Interactive Genomics Viewer
ImageMagick1
6.5.4


Free/OSS
ImageMagick team
Bitmap image tools
Impute2
2.3.1
2.3.0
impute2/2.3.1
impute2/2.3.0
Free
University of Oxford
Genotype imputation and phasing
Intel Compilers
14.0.2
14.0.1
13.1.3
13.1.1
13.0.0
12.1.5
12.1.0
intel/compilers/14.0.2
intel/compilers/14.0.1
intel/compilers/13.1.3
intel/compilers/13.1.1
intel/compilers/13.0.0
intel/compilers/12.1.5
intel/compilers/12.1.0
5 users
Intel
Intel C/C++/Fortran compilers
Intel ITAC

8.1.4
8.0.3

intel/tac/8.1.4
intel/tac/8.0.3
ALICE
Intel
Intel trace analyser and collector
Intel MPI
4.1.3
4.1.1
4.1.0
4.0.3
intel/impi/4.1.3
intel/impi/4.1.1
intel/impi/4.1.0
intel/impi/4.0.3
ALICE
Intel
Intel MPI parallel programming libraries
Intel MKL
11.0.0
10.3.11
intel/mkl/11.0.0
intel/mkl/10.3.11
ALICE
Intel
Intel math kernel libraries
IRAF
2.16
iraf/2.16
Free/OSS
NOAO Reduction and analysis of astronomical data
ISIS 1.6.2-27 isis/1.6.2-27 Free/OSS MIT Interpretation and analysis of high resolution X-ray spectra

J

Software
Version
Module
Licence
Supplier
Description
Java JDK

1.8.0u25
1.7.0u72
1.7.0u25

java/1.8.0_25
java/1.7.0_72
java/1.7.0_25
Free
Oracle
Programming language
Jemboss
1.5
emboss/6.6.0


See EMBOSS
joe
3.7

Free/OSS
Joseph Allen
Text editor

K

Software

Version
Module                        
Licence
Supplier
Description
KAT
1.0.5
kat/1.0.5
Free/OSS
TGAC
k-mer spectra analysis
khmer 1.1 khmer/1.1 Free/OSS khmer team k-mer sequence analysis

L

Software
Version
Module                        
Licence
Supplier
Description
LAPACK
3.4.2
lapack/gcc/3.4.2
lapack/intel/3.4.2
Free/OSS
Netlib
Linear algebra routines for F90
log4cxx 0.10.0 log4cxx/0.10.1 Free/OSS Apache Software Foundation C++ logging framework

M

Software
Version
Module
Licence
Supplier
Description
Magics 2.18.15 magics/2.18.15 Free/OSS Magics team Meteorological plotting
Maple 17 maple/17 Commercial Maplesoft Mathematical modelling
Mauve 2.3.1 mauve/2.3.1 Free/OSS Genome Evolution Laboratory
Multiple genome alignment
MATLAB
2013a
(8.1.0.604)
matlab/2013a

Commercial
MathWorks
High level programming language
MetView 4.3.4 metview/4.3.4 Free/OSS MetView team
Meteorological workstation working environment  
MOLDEN 5.1 molden/5.1 Free/OSS Nijmegen Centre for Molecular and Biomolecular Informatics Molecular density pre- and post-processor
MOPEX 18.5.0 mopex/18.5.0 Free/OSS NASA Spitzer MIPS instrument tools
Mothur
1.32.1
mothur/1.32.1
Free/OSS
Patrick Schloss
Microbial ecology bioinformatics tool
mrCaNaVaR
0.41
mrcanavar/0.41
Free/OSS
mrCaNaVaR team
micro-read Copy Number Variant Regions
mrFAST
2.6.0
mrfast/2.6.0
Free/OSS
mrFAST team
Micro Read Fast Alignment Search Tool
mrsFAST-Ultra 3.3.4
3.2.0
mrsfast-ultra/3.3.4
mrsfast-ultra/3.2.0
Free/OSS mrsFAST-Ultra team Micro read substitution-only Fast Alignment Search Tool
MUMmer 3.23 mummer/3.23 Free/OSS MUMmer team Ultra-fast alignment of large-scale DNA and protein sequences

N

Software
Version
Module                        
Licence
Supplier
Description
NAG
Various
nag/product
Commercial
NAG
Numerical libraries for C, Fortran
NASA Baselibs
2.2.0
nasa-baselibs/2.2.0
Free/OSS
NASA
A collection of libraries used by the GEOS5 software
NetCDF
4.3.0
4.2.1.1
netcdf/gcc/c/4.3.0
netcdf/gcc/4.2.1.1
netcdf/intel/4.2.1.1
Free/OSS
Unidata
Data model library
Netpbm1
10.47.05

Free/OSS
Netpbm team
Bitmap image tools
NEURON 7.3 neuron/7.3 Free/OSS NEURON team Empirically-based simulations of neurons / neuron networks  
NCL/NCAR 6.2.0 ncl/6.2.0 Free/OSS UCAR Data analysis and visualisation
NJplot
2.3
njplot/2.3
Free, cite if work published
Pôle Bioinformatique Lyonnais
Phylogenetic tree drawing

O

Software
Version
Module                       
Licence
Supplier
Description
OpenFOAM 2.2.2 openfoam/2.2.2 Free/OSS OpenFOAM Foundation Computational fluid dynamics
OpenMPI
1.6.5
openmpi/gcc/1.6.5
Free/OSS
OpenMPI team
MPI parallel programming interface
orthAgogue 1.0.3 orthagague/1.0.3 Free/OSS Norwegian University of Science and Technology Tool for rapid prediction of orthology relations

P

Software
Version
Module                         
Licence
Supplier
Description
PAGIT 1 pagit/1.00 Free Sanger Institute Post Assembly Genome Improvement Toolkit
ParaView*
4.1.0
paraview/4.1.0
Free/OSS
ParaView team
Visualisation
Partek Genomics Suite
6.13.0516
partek/6.13.0516

Restricted

Partek Inc Genomics analysis and visualisation  

PDL
2.4.9

Free/OSS
PDL community
Perl data language
Period04 1.2.0 period4/1.2.0 Free/OSS TOPS Group, Universität Wien Analysis of large astronomical time series
Perl
5.10.1

Free/OSS
Perl community
Perl programming language interpreter
PGPlot**
5.2
pgplot/5.2
Free/OSS
CalTech
Data visualisation
PHASE 2.1.1 phase/2.1.1 See terms
University of Washington

Reconstruction of haplotypes from population data.

picard
1.93 picard/1.93 Free/OSS

The Broad Institute

Java tools for next generation sequencing data

PIMMS 4.7 pimms/4.7 Free/OSS NASA Goddard Space Flight Centre Portable, Interactive Multi-Mission Simulator
PLATO
1.2.6
plato/1.2.6
Free/OSS
Center for System Genomics, Penn State University
PLatform for the Analysis, Translation and Organisation of large scale genome data
plink
1.0.7
plink/1.0.7
Free/OSS
Shaun Purcell
Whole genome association analysis tool
PLINK/SEQ 0.08 plinkseq/0.08 Free/OSS Massachusetts General Hospital Human genetic variation tools
PROJ.4 4.8.0 proj/4.8.0 Free/OSS Open Source Geospatial Foundation Cartographic projections library
Prokka 1.7 prokka/1.7 Free/OSS Victorian Bioinformatics Consortium
Prokaryotic genomes rapid annotation
Python
3.2.3
2.7.3
2.4.6
python/3.2.3
python/2.7.3
python/2.4.6
Free/OSS
Python Software Foundation Programming language

*Currently not parallelised.

**Please only use PGPLOT if there's absolutely no alternative. It's no longer maintained and becomes increasingly harder to support as operating systems develop.

Q

Software
Version
Module
Licence
Supplier
Description
QCTOOL
1.4
1.3
1.1
qctool/1.4
qctool/1.3
qctool/1.1
Free
QCTOOL Team
Control of GWAS data sets
QDOAS
2.103
2.0
qdoas/2.103
qdoas/2.0
Free/OSS
BIRA-IASB and S[&]T atmospheric chemistry, differential optical absorption spectroscopy
qiime
1.7.0
qiime/1.7.0
Free/OSS
qiime
pipeline for performing microbial community analysis
Qt 4.8.5 qt/4.8.5 Free/OSS Digia UI framework

R

Software
Version
Module
Licence
Supplier
Description
R (including RStudio)
3.1.1
3.0.2

3.0.1

R/3.1.1
R/3.0.2
R/3.0.1

Free/OSS
R team
Statistical computing
RAREMETALWORKER 0.3.4 raremetalworker/0.3.4 Free/OSS Centre for Statistical Genetics Rare variants and gene level meta analysis
Reflex 2.4 reflex/2.4 Free/OSS ESO Astronomy data reduction using ESO pipelines
Reptile 1.1 reptile/1.1 Free/OSS Reptile team Next-gen sequence error correction
rmfit 43pr2 rmfit/432 Free/OSS NASA GSFC Fermi GBM analysis tools
ROOT
5.34.10
root/5.34.10
Free/OSS
CERN
Object oriented programming environment
Ruby
2.0.0
1.8.7
ruby/2.0.0
Free/OSS
Ruby community
Programming language

S

Software
Version
Module
Licence
Supplier
Description
SAMtools
1.1
0.1.19
samtools/1.1
samtools/0.1.19
Free/OSS
SAMtools team
SAM-format sequence alignment tools
SAS 9.3 sas/9.3 Restricted SAS Institute Statistical analysis
SGA 2014-11-13 sga/2014-11-13 Free/OSS Sanger Institute String Graph Assembler
SHAPEIT
2.644
1.416
shapeit/2.644
shapeit/1.416
Free
Olivier Delanneau Haplotype inference tool
SilVA 1.1.1 silva/1.1.1 Free/OSS Computational Biology Lab, University of Toronto Automated harmfulness prediction of synonymous mutations within human genome
SNPtest
2.5

2.5 beta 4
2.4.1

snptest/2.5
snptest/2.5.b4
snptest/2.4.1
Free
University of Oxford
SNP analysis
SOAPdenovo 2.04 soapdenovo/2.04 Free/OSS Beijing Genomics Institute Short Oligonucleotide Analysis Package
SOAPdenovo-Trans 1.03 soapdenovo-trans/1.03 Free/OSS Beijing Genomics Institute de novo transcriptome assembler
SOLAR
7.2.5
solar/7.2.5
Some features require free registration
SOLAR
Genetic variance components analysis
SPEX 2.03 spex/2.03 Free SRON X-ray spectra analysis
Stacks 1.06 stacks/1.06 Free/OSS
University of Oregan
Building loci from short-read genome sequences
Staden
2.0.0b9
staden/2.0.0b9
Free/OSS
Sourceforge
DNA sequence assembly (Gap4 and Gap5), editing and analysis tools
Starlink
2014A
Hikianalia 2013-04-16

starlink/2014-07-30
starlink/2013-04-16
Free/OSS
Starlink team
Astronomical data processing
STATA MP8
12
11
stata/12/mp8
stata/11/mp8
Restricted
STATA
Statistics, graphs and data management
STILTS 2.5-3 stilts/2.5-3 Free/OSS Astrophysics Group, Bristol University Starlink Tables Infrastructure Library Tool Set
stsci_python 2.14 stsci_python/2.14 Free/OSS STScI
General astronomical data analysis infrastructure 
Subversion1
1.8.3

Free/OSS
Apache Software Foundation
Version control client
SuperMongo
2.4.38
supermongo/2.4.38
Restricted
Robert Lupton and Patricia Monger
Data visualisation
SYBYL 7.3 sybyl/7.3 Restricted Tripos Computational chemistry and molecular modelling

T

Software
Version
Module
Licence
Supplier
Description
Tabix/bgzip
0.2.6
tabix/0.2.6
Free/OSS
SAM tools team
Generic indexer for TAB-delimited genome position files
Tablet 1.13.07.31 tablet/1.13.07.31 Free/OSS James Hutton Institute NGS assembly visualisation
TOPCAT 4.2
4.1
4.0
topcat/4.2
topcat/4.1-0
topcat/4.0-1
Free/OSS Astrophysics Group, Bristol University Tool for OPerations on Catalogues And Tables
TopHat 2.1.0 tophat/2.1.0 Free/OSS TopHat team Fast splice junction mapper for RNA-Seq reads
Trans-ABySS 1.5.1
1.4.8
transabyss/1.5.1
transabyss/1.4.8
Free/OSS

Canada's Michael Smith Genome Sciences Centre

Transcriptome data analysis pipeline
Transrate 0.3.1 transrate/0.3.1 Free/OSS Transrate team Transcriptome assembler
TRAP 2.0 TRAP/2.0 Free/OSS Bio & Health Lab, Seoul National University Time-series RNA-seq Analysis Package
Trimmomatic 0.32 trimmomatic/0.32 Free/OSS Trimmomatic team Illumina NGS read trimmer
Trinity 2014-07-17 trinity/20140717 Free/OSS Trinity team RNA-seq assembler

U

Software
Version
Module
Licence
Supplier
Description
Ureka 1.4.1 ureka/1.4.1 Varied, mainly Free/OSS Collated by Space Telescope Science Institute
Astronomy data reduction

V

Software
Version
Module
Licence
Supplier
Description
Valgrind
3.8.1

Free/OSS
Valgrind team
Software analysis tool
VARTOOLS 1.3 vartools/1.3 Free/OSS Princeton University Tool for analysing light curves
vcflib 2014-02-03 vcflib/20140203 Free/OSS Erik Garrison VCF C++ library and tools
VCFtools

0.1.12a

0.1.11

vcftools/0.1.12a

vcftools/0.1.11

Free/OSS
VCFtools team Tools for using Variant Call Format files  
Velvet
1.2.10
velvet/1.2.10
Free/OSS
Daniel Zerbino / Ewan Birney
Sequence assembler for very short reads
VTK 6.1.0 VTK/6.1.0 Free/OSS Kitware, Inc. Visualisation toolkit

W

Software
Version
Module
Licence
Supplier
Description
WCSTools 3.8.7
wcstools/3.8.7
Free/OSS
SAO
World Coordinate Systems tools
WRF 3.6 wrf/3.6 Free/OSS WRF team Next-generation mesoscale numerical weather prediction system  

X

Software
Version
Module
Licence
Supplier
Description
Xfig1
3.2.5a

Free/OSS
Xfig team
Illustration tool
XMM SAS

14.0.0
13.5.0
13.0.1

xmmsas/14.0.0
xmmsas/13.5.0
xmmsas/13.0.1
Free
ESA
XMM-Newton Science Analysis System

0-9

Software
Version
Module
Licence
Supplier
Description
454 Sequencing
2.6.0
gs454/2.6.0
Commercial
Roche
454 Gene sequencer, post-processing and analysis

Notes

1. Login nodes only.

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