Software-old: Difference between revisions

Revision as of 13:19, 29 April 2016

Installed Software List

Last updated 2016-04-29.

Note: Click on the icons to the right of the column headings to sort the table.

0-9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Name	Version	Category	Cluster
454 Software		Bioinformatics	Zcluster
a5-miseq	20140604	Bioinformatics	Zcluster
aaarf	1.0.0	Bioinformatics	Zcluster
ABINIT	6.12.1	Chemistry	Zcluster
ABySS	1.9.0	Bioinformatics	Sapelo
ABySS	1.9.0	Bioinformatics	Zcluster
ACT	03/27/2013	Bioinformatics	Zcluster
ADMIXTOOLS	1.1	Bioinformatics	Zcluster
Admixture	1.22	Bioinformatics	Zcluster
AFNI	2013.04.26	Other	Zcluster
ALLPATHS-LG	47907	Bioinformatics	Zcluster
AMBER	14	Chemistry	Sapelo
AMBER	11, 12, 14	Chemistry	Zcluster
amos	3.1.0	Bioinformatics	Zcluster
AmpliconNoise	1.25	Bioinformatics	Zcluster
Anaconda	2.2.0, 2.5.0, 3-2.2.0	Programming	Sapelo
Anaconda	2.3.0, 3-2.2.0	Programming	Zcluster
Anduril	1.2.23	Bioinformatics	Zcluster
ANNOVAR	2015Mar22	Bioinformatics	Zcluster
ANSYS	16.2	Engineering	Sapelo
apache-ant	1.9.6	Other	Sapelo
ARB	6.0.2	Bioinformatics	Zcluster
Arlequin	3.5.1.3	Bioinformatics	Zcluster
Aspera	3.1.0.67054	Other	Zcluster
AStalavista	3.2	Bioinformatics	Sapelo
Atlas2	1.4.3 r158	Bioinformatics	Zcluster
AUGUSTUS	2.5.5	Bioinformatics	Zcluster
BamBam	1.4	Bioinformatics	Zcluster
bam2fastq	1.1.0	Bioinformatics	Zcluster
Bamtools	2.4.0	Bioinformatics	Sapelo
Banjo	2.2.0	Bioinformatics	Zcluster
Batchsub	1.0	Bioinformatics	Zcluster
BayeScan	2.1	Bioinformatics	Zcluster
BBMap	35.82	Bioinformatics	Sapelo
BBMap	35.66	Bioinformatics	Zcluster
bcl2fastq	2.16.0.10	Bioinformatics	Sapelo
bcl2fastq	1.8.4, 2.16.0.10, 2.17.1.14	Bioinformatics	Zcluster
bcl2fastq-brwnj	10262015	Bioinformatics	Zcluster
BEAST	2.3.2	Bioinformatics	Zcluster
BEDops	2.4.14	Bioinformatics	Sapelo
BEDops	2.4.2, 2.4.16	Bioinformatics	Zcluster
BEDTools	2.25.0	Bioinformatics	Sapelo
BEDTools	2.25.0	Bioinformatics	Zcluster
BEST	2.3.1	Bioinformatics	Zcluster
bfast	0.7.0	Bioinformatics	Zcluster
Bio++ Program Suite	2.2.0	Bioinformatics	Zcluster
Bioconductor	2.11, 2.13	Bioinformatics	Zcluster
BioPerl	1.6.923	Bioinformatics	Sapelo
BioPerl	1.61	Bioinformatics	Zcluster
biopy	0.1.8	Bioinformatics	Zcluster
BioPython	1.64	Bioinformatics	Zcluster
biotoolbox	1.22	Bioinformatics	Zcluster
Bismark Bisulfite Mapper	0.14.0	Bioinformatics	Zcluster
BiSS	0.0.1	Bioinformatics	Zcluster
BLAS	3.0	Math Library	Zcluster
BLASR	1.3.1	Bioinformatics	Sapelo
BLASR	1.3.1	Bioinformatics	Zcluster
Blast2lca	0.8	Bioinformatics	Sapelo
Blat	36	Bioinformatics	Sapelo
Blat	3.5	Bioinformatics	Zcluster
BMGE	1.1	Bioinformatics	Zcluster
Boost	1.47.0, 1.57.0, 1.59.0	Library	Sapelo
Boost	1.54.0	Library	Zcluster
bowtie	1.1.1	Bioinformatics	Sapelo
bowtie	1.1.0	Bioinformatics	Zcluster
bowtie2	2.2.4	Bioinformatics	Sapelo
bowtie2	2.2.3	Bioinformatics	Zcluster
BP&P	2.2, 3, 3.1	Bioinformatics	Zcluster
breakdancer	1.1.2_2013_03_08	Bioinformatics	Zcluster
bridger	2014-12-01	Bioinformatics	Zcluster
brownie	2.1.2	Bioinformatics	Zcluster
BS Seeker	Dec 113	Bioinformatics	Zcluster
BS Seeker2	Oct 30 2013	Bioinformatics	Zcluster
BUCKy	1.4.3	Bioinformatics	Zcluster
Burrows-Wheeler Aligner (BWA)	0.7.10	Bioinformatics	Sapelo
Burrows-Wheeler Aligner (BWA)	0.7.10	Bioinformatics	Zcluster
bx-python	06/24/2013	Bioinformatics	Zcluster
cadaver	0.23.3	Bioinformatics	Zcluster
Cafe	3.1	Bioinformatics	Zcluster
Caffe	12.04.2015	Other	Sapelo
Caffe	11.26.2014	Other	Zcluster
canu	1.0	Bioinformatics	Sapelo
CAP-miRSeq	01/2014	Bioinformatics	Zcluster
cap3	03/09/2015	Bioinformatics	Sapelo
cap3	10/2011	Bioinformatics	Zcluster
casava	1.8.2	Bioinformatics	Zcluster
cblas	3.0	Math Library	Zcluster
cd-hit	4.6.1	Bioinformatics	Zcluster
cdbfasta	04282012	Bioinformatics	Zcluster
cdbtools	06172013	Bioinformatics	Zcluster
CEAS	1.0.2	Bioinformatics	Zcluster
CEGMA	2.5	Bioinformatics	Zcluster
celera	8.1	Bioinformatics	Zcluster
CFOUR	1.2	Chemistry	Sapelo
CFOUR	beta, 1.2	Chemistry	Zcluster
CGAT	0.2.4	Bioinformatics	Sapelo
CheckM	1.0.5	Bioinformatics	Sapelo
CheckM	1.0.5	Bioinformatics	Zcluster
ChromHMM	1.0	Bioinformatics	Zcluster
circoletto	21.10.13	Bioinformatics	Zcluster
circos	0.64	Bioinformatics	Zcluster
cisa	20140304	Bioinformatics	Sapelo
cisgenome	2.0	Bioinformatics	Zcluster
CLAPACK	3.2.1	Math Library	Zcluster
CLUMPP	1.1.2	Bioinformatics	Zcluster
Clustal-Omega	1.2.1	Bioinformatics	Zcluster
ClustalW	2.1	Bioinformatics	Zcluster
CLUSTER	3.0	Bioinformatics	Zcluster
cmake	2.8.12.2, 3.0.2	Other	Sapelo
CNVnator	0.2.7	Bioinformatics	Zcluster
cnv-seq	0.2-7	Bioinformatics	Zcluster
Coding Potential Calculator	0.9-r2	Bioinformatics	Zcluster
CoMap	1.4.1	Bioinformatics	Zcluster
Conclustador	0.4a	Bioinformatics	Zcluster
Consed	28.0	Bioinformatics	Zcluster
CONSEL	v0.20	Bioinformatics	Zcluster
CORMA	5.21	Chemistry	Zcluster
cortex_con	0.04c	Bioinformatics	Zcluster
cortex_var	1.0.5.3	Bioinformatics	Zcluster
Count	2010-04-02	Bioinformatics	Zcluster
CRB-BLAST	0.3.2	Bioinformatics	Zcluster
CREST	1.0	Bioinformatics	Zcluster
CrossMap	0.1.5	Other	Zcluster
ctrax	0.3.2	Other	Zcluster
CUDA	5.0.35, 6.5.14	Programming	Sapelo
CUDA	4.0.17, 4.2.9, 5.0.35, 6.0.37, 6.5.14	Programming	Zcluster
cufflinks	2.2.1	Bioinformatics	Sapelo
cufflinks	2.2.1	Bioinformatics	Zcluster
curl	7.15.5, 7.47.1	Other	Zcluster
cutadapt	1.9.dev1	Bioinformatics	Sapelo
cutadapt	1.9.dev1	Bioinformatics	Zcluster
CWEB	3.64	Other	Zcluster
CytoScape	3.3.0	Bioinformatics	Sapelo
Danpos2	2.2.2	Bioinformatics	Zcluster
datamash	1.0.7	Other	Sapelo
datamash	1.0.6	Other	Zcluster
Davinci	2.09	Bioinformatics	Zcluster
DBG2OLC	04062015	Bioinformatics	Zcluster
ddRADseq	0.01	Bioinformatics	Zcluster
DeconSeq	0.4.3	Bioinformatics	Zcluster
deepnet	20151013	Other	Sapelo
deeptools	1.6	Bioinformatics	Zcluster
deepnet	20150820	Other	Zcluster
DELLY	0.5.5	Bioinformatics	Zcluster
demuxipy	1.0	Bioinformatics	Zcluster
dendropy	3.12.0	Bioinformatics	Sapelo
detect-NAHR	2015.09.16	Bioinformatics	Sapelo
DETONATE	20140123	Bioinformatics	Zcluster
DIAMOND	0.7.9	Bioinformatics	Sapelo
DIAMOND	0.6.12	Bioinformatics	Zcluster
DISCOVAR	49856	Bioinformatics	Zcluster
diyabc	2.0.4	Bioinformatics	Zcluster
DLCoal	1.0	Bioinformatics	Zcluster
dnasam	20100621	Bioinformatics	Zcluster
dDocent	1.2	Bioinformatics	Zcluster
drmma	0.5	Other	Zcluster
ea-utils	1.1.2-822	Bioinformatics	Zcluster
eclipse	4.3.1	Other, Programming	Zcluster
ECTools	08/18/2014	Other, Programming	Zcluster
edena	v3.130110	Bioinformatics	Zcluster
EDGE-pro	1.3.1	Bioinformatics	Zcluster
editag	1.1	Bioinformatics	Zcluster
EMBOSS	6.5.7	Bioinformatics	Zcluster
emirge	1.0	Bioinformatics	Zcluster
emmax	beta-07Mar2010	Bioinformatics	Zcluster
emmix	1.3	Bioinformatics	Zcluster
ensembl-tools	76	Bioinformatics	Zcluster
EPIG-Seq	v01	Bioinformatics	Sapelo
ESTscan	3.0.3	Bioinformatics	Zcluster
evm (EVidenceModeler)	r2012-06-25	Bioinformatics	Zcluster
exabayes	1.4.1	Bioinformatics	Sapelo
exabayes	1.2.1	Bioinformatics	Zcluster
ExaML	3.0.11	Bioinformatics	Sapelo
ExaML	315576	Bioinformatics	Zcluster
exonerate	2.2.0	Bioinformatics	Zcluster
express	1.5.1	Bioinformatics	Zcluster
FALCON	0.4.0	Bioinformatics	Sapelo
FALCON	0.4.0	Bioinformatics	Zcluster
FAR	2.15	Bioinformatics	Zcluster
FASTA	36	Bioinformatics	Zcluster
fasta format cleaner	1.0	Bioinformatics	Zcluster
fastphase	1.4.0	Bioinformatics	Sapelo
fastphase	1.4.0	Bioinformatics	Zcluster
FastQC	0.11.4	Bioinformatics	Sapelo
FastQC	0.11.4	Bioinformatics	Zcluster
FastTree	2.1.8	Bioinformatics	Zcluster
FastX	0.0.13.2, 0.0.14	Bioinformatics	Sapelo
FastX	0.0.13.2, 0.0.14	Bioinformatics	Zcluster
FastUniq	1.1	Bioinformatics	Zcluster
FCP	1.0.4	Bioinformatics	Zcluster
fc_squared	20160404	Chemistry	Zcluster
FFmpeg	0.10.2	Other	Zcluster
FFTbor	11.21.2014	Bioinformatics	Zcluster
FFTW	2.1.5, 3.3.4	Math Library	Sapelo
FFTW	2.1.5, 3.3.0, 3.3.3	Math Library	Zcluster
Fiji	2015/12/09	Bioinformatics	Zcluster
FIRE	1.1	Bioinformatics	Zcluster
FitModel	20140407	Bioinformatics	Zcluster
FLASH	1.2.11	Bioinformatics	Sapelo
FLASH	1.2.11	Bioinformatics	Zcluster
Flexbar	2.4	Bioinformatics	Zcluster
FragStats	2.0	Other	Zcluster
Freebayes	1.0.1	Bioinformatics	Sapelo
Freebayes	1.0.0	Bioinformatics	Zcluster
F-Seq	1.84	Bioinformatics	Zcluster
Fsl	5.0.4	Bioinformatics	Zcluster
gam-ngs	10/8/2013	Bioinformatics	Zcluster
GAMESS	5Dec2014	Chemistry	Sapelo
GAMESS	May2012R1 with XMVB 2.0, May2013R1, 5Dec2014	Chemistry	Zcluster
GapFiller	1.11	Bioinformatics	Zcluster
garli	2.01	Bioinformatics	Zcluster
gatk	3.5	Bioinformatics	Sapelo
gatk	3.5	Bioinformatics	Zcluster
GAUSSIAN09	09	Chemistry	Zcluster
GaussView	5	Chemistry	Zcluster
Gblocks	0.91b	Bioinformatics	Sapelo
Gblocks	0.91b	Bioinformatics	Zcluster
GBSX	1.1.4	Bioinformatics	Zcluster
GDB	7.0.1	Debugger	Zcluster
GEM	3rd pre-release	Bioinformatics	Zcluster
GEMMA	0.95alpha	Bioinformatics	Zcluster
GeneMark	4.21	Bioinformatics	Zcluster
Genome	Phred version: 0.071220.c	Bioinformatics	Zcluster
GenomeMapper	0.4.4 (Version for SHORE/WMD3)	Bioinformatics	Zcluster
GenomeTools	1.5.1	Bioinformatics	Zcluster
GenomicConsensus	0.9.0	Bioinformatics	Zcluster
Gingr	1.0	Other	Zcluster
git	1.7.1, 2.7.0	Other	Sapelo
git	1.7.6, 1.7.11.3, 2.0.0	Other	Zcluster
GKIN	1.1	Bioinformatics	Zcluster
Glimmer	3.0.2	Bioinformatics	Zcluster
GlimmerHMM	3.0.1	Bioinformatics	Zcluster
gmap-gsnap	2013-09-11	Bioinformatics	Zcluster
GMP	4.3.1, 6.0.0	Library	Sapelo
GMPFRXX	20081116	Library	Sapelo
GNU Compilers	4.4.7, 4.7.4, 5.3.0	Compiler	Sapelo
GNU Compilers	4.1.2, 4.4.7, 4.5.3, 4.7.1, 5.3.0	Compiler	Zcluster
GNUMAP	3.0.2	Bioinformatics	Zcluster
gnuplot	4.0, 4.6.0	Graphics	Zcluster
gprof	2.17	Profiler	Zcluster
gpu-blast	1.1 with ncbi-blast-2.2.25+	Bioinformatics	Zcluster
grace	5.1.25	Graphics	Sapelo
grace	5.1.22	Graphics	Zcluster
GrADS	2.1a3	Other	Sapelo
GraPhlAn	0.9.7	Graphics	Zcluster
Gromacs	5.0.2	Chemistry	Sapelo
Gromacs	4.5.5, 4.6.1	Chemistry	Zcluster
GSL	1.16	Math Library	Sapelo
GSL	1.9, 1.15, 1.16	Math Library	Zcluster
gss		Bioinformatics	Zcluster
Haplomerger2	20151124	Bioinformatics	Zcluster
Hapmix	2	Bioinformatics	Zcluster
HARP	130306_105556	Bioinformatics	Zcluster
HDF5	1.8.6, 1.8.14	Library	Sapelo
HDF5	1.6.4, 1.8.9	Library	Zcluster
HH-Suite	2.0.16	Library	Zcluster
HipMer	0.9.4	Bioinformatics	Sapelo
Hmmer	3.1b2	Bioinformatics	Sapelo
Hmmer	3.1b1	Bioinformatics	Zcluster
Homer	4.3	Bioinformatics	Zcluster
hotspot	5	Bioinformatics	Zcluster
htseq	0.6.1p1	Bioinformatics	Sapelo
htseq	0.5.3p3, 0.6.1p1	Bioinformatics	Zcluster
HyDe	1.0	Bioinformatics	Sapelo
HyPhy	2.2.1	Bioinformatics	Zcluster
IDBA-MT	1.1.0	Bioinformatics	Zcluster
IDBA	1.1.2	Bioinformatics	Sapelo
IDBA-UD	1.1.1	Bioinformatics	Zcluster
igb	6.7.3	Bioinformatics	Zcluster
IGV	2.1.23	Bioinformatics	Zcluster
IGVTools	2.3.14	Bioinformatics	Zcluster
IMa2	8.27.12	Bioinformatics	Zcluster
indel-Seq-Gen	2.02	Bioinformatics	Zcluster
Infernal	1.1.1	Bioinformatics	Zcluster
InStruct	3.2.09	Bioinformatics	Zcluster
Intel Compilers	14.0.0, 15.0.2	Compiler	Sapelo
Intel Compilers	2013 SP1	Compiler	Zcluster
iprscan (InterProScan)	5.16-55.0	Bioinformatics	Sapelo
iprscan (InterProScan)	5.9-50.0	Bioinformatics	Zcluster
iRODS	4.2.0	Other	Zcluster
iscan	1.0.0	Bioinformatics	Zcluster
ITK	3.20.1	Other	Zcluster
iva	1.0.3	Bioinformatics	Sapelo
iva	1.0.3	Bioinformatics	Zcluster
JAGS	3.4.0, 4.1.0	Statistics	Sapelo
JAGS	3.3.0, 4.1.0	Statistics	Zcluster
JasPer	1.900.1	Other	Sapelo
JasPer	1.900.1	Other	Zcluster
Java	6, 7, 8	Programming	Sapelo
Java	6, 7, 8	Programming	Zcluster
Jellyfish	2.2.3	Bioinformatics	Sapelo
Jellyfish	2.1.1	Bioinformatics	Zcluster
JModelTest	2.1.4	Bioinformatics	Zcluster
Julia	0.3.0-beta, 0.3.3	Programming	Zcluster
k-link	03 27, 2009	Bioinformatics	Zcluster
kallisto	0.42.5	Bioinformatics	Zcluster
Kat	1.0.6	Bioinformatics	Zcluster
KisSplice	2.2.1	Bioinformatics	Zcluster
Kraken	0.10.5-beta	Bioinformatics	Zcluster
KmerGenie	1.7016	Bioinformatics	Sapelo
KmerGenie	1.5393	Bioinformatics	Zcluster
Lagrange	20130526	Bioinformatics	Zcluster
LAMMPS	16Aug13, 5Sep14, 10Aug15, 7Dec15, 16Feb16	Chemistry	Sapelo
LAMMPS	23Sep13, 5Sep14, 10Aug15	Chemistry	Zcluster
LAPACK	3.0, 3.4.2	Math Library	Zcluster
LAST	719	Bioinformatics	Sapelo
LASTZ	1.02.00, 1.03.73	Bioinformatics	Sapelo
LASTZ	1.03.02	Bioinformatics	Zcluster
LCS	1.0	Bioinformatics	Zcluster
LDDist	1.3.2	Bioinformatics	Zcluster
LDhat	2.2	Bioinformatics	Sapelo
LDhelmet	1.7	Bioinformatics	Sapelo
LDhot	0.4	Bioinformatics	Sapelo
Lep-Map2	0.2	Bioinformatics	Zcluster
libsequence	1.7.4	Bioinformatics	Zcluster
LIBSVM	3.21	Other	Sapelo
LIBSVM	3.17	Other	Zcluster
Lighter	06192015	Bioinformatics	Zcluster
LLVM-Clang	3.1	Compiler	Zcluster
lmod	5.8	Other	Sapelo
LoFreq	2.1.2	Bioinformatics	Zcluster
lsa	11182011	Bioinformatics	Zcluster
macs	1.4.2	Bioinformatics	Zcluster
macs2	2.1.0.20140616	Bioinformatics	Zcluster
Mafft	7.273-e	Bioinformatics	Sapelo
Mafft	7.029-e	Bioinformatics	Zcluster
Magma	2.21-3	Other	Zcluster
maker	2.31.7	Bioinformatics	Zcluster
Maple	16	Other, Programming, Graphics	Zcluster
MapSplice2	2.1.7	Bioinformatics	Zcluster
MAQ	0.7.1	Bioinformatics	Zcluster
MARDIGRAS	3.21	Chemistry	Zcluster
MaSuRCA	2.3.0	Bioinformatics	Zcluster
MATS	3.0.9	Bioinformatics	Zcluster
Mathematica	9.0 (currently not available)	Other, Programming , Graphics	Zcluster
Matlab	R2015b (8.6)	Other, Programming, Graphics	Sapelo
MatLab	R2012a (7.14), R2013a (8.1)	Other, Programming, Graphics	Zcluster
Mauve	snapshot_2015-02-13	Bioinformatics	Zcluster
MAVEN-genome	682, 769, 774	Bioinformatics	Zcluster
MaxBin	2.1.1	Bioinformatics	Sapelo
MCScanX	10/18/2013	Bioinformatics	Zcluster
MCL	12-135	Bioinformatics	Zcluster
MEAD	2.2.9	Chemistry	Zcluster
Megahit	1.0.1	Bioinformatics	Sapelo
Megahit	1.0.2	Bioinformatics	Zcluster
MeGAMerge	1.0	Bioinformatics	Zcluster
megan	5.5.3	Bioinformatics	Zcluster
MEME	4.10.2, 4.11.0	Bioinformatics	Sapelo
MEME	4.10.0	Bioinformatics	Zcluster
MEMo	1.1	Bioinformatics	Zcluster
Meraculous	2.0	Bioinformatics	Sapelo
Meraculous	2.0	Bioinformatics	Zcluster
MetaBAT	20151110	Bioinformatics	Sapelo
MetaMOS	v1.5rc1	Bioinformatics	Zcluster
metaseq	0.5.6	Bioinformatics	Zcluster
Metavelvet	1.2.02	Bioinformatics	Sapelo
Metavelvet	1.2.02	Bioinformatics	Zcluster
MetavelvetSL	1.0	Bioinformatics	Sapelo
MethPipeline	0.1_120115	Bioinformatics	Sapelo
METIS	4.0.3, 5.1.0	Math Library	Zcluster
MGA	1.5.4	Bioinformatics	Zcluster
Migrate	3.5.1	Bioinformatics	Zcluster
Minia	1.4683	Bioinformatics	Zcluster
MIRA	3.9.9	Bioinformatics	Zcluster
MITE-Hunter	11-2011	Bioinformatics	Zcluster
MixMapper	2.0	Bioinformatics	Zcluster
MKL	11.1, 11.2	Math Library	Sapelo
MKL	11.0	Math Library	Zcluster
MOABS	1.3.2	Bioinformatics	Sapelo
MOABS	1.2.9	Bioinformatics	Zcluster
MOCAT	1.3r2	Bioinformatics	Sapelo
MONO	3.0.3	Other, Programming	Zcluster
MOSAIK	2.2.24	Bioinformatics	Zcluster
MOTECC qmdcp	90	Chemistry	Zcluster
MOTHUR	1.35.1	Bioinformatics	Zcluster
MP-EST	1.2	Bioinformatics	Zcluster
mpeg2vidcodec	12	Category:Other	Zcluster
mpi4py	1.3	Programming	Zcluster
mpiblast	1.6.0	Bioinformatics	Zcluster
MPFR	3.1.2	Library	Sapelo
MPFRC++	3.6.2	Library	Sapelo
MrBayes	3.2.5	Bioinformatics	Zcluster
mrfast	2.5.0.4	Bioinformatics	Zcluster
MSA	3.8.1b	Bioinformatics	Zcluster
MSG	0.4.3	Bioinformatics	Zcluster
MSTMap	20160408	Bioinformatics	Zcluster
MultiLoc2	26-10-2009	Bioinformatics	Sapelo
MultiLoc2	26-10-2009	Bioinformatics	Zcluster
MultiSplice	0.10	Bioinformatics	Zcluster
MUMmer	3.23	Bioinformatics	Sapelo
MUMmer	3.22	Bioinformatics	Zcluster
MUMPS	4.10.0	Math Library	Zcluster
MUSCLE	3.8.31	Bioinformatics	Sapelo
MUSCLE	3.8.31	Bioinformatics	Zcluster
MyScanACE	04232012	Bioinformatics	Zcluster
MuTect	1.1.5	Bioinformatics	Zcluster
NAMD	2.9	Chemistry	Zcluster
NCBI Blast	2.2.26	Bioinformatics	Sapelo
NCBI Blast	2.2.26	Bioinformatics	Zcluster
NCBI Blast +	2.2.29	Bioinformatics	Sapelo
NCBI Blast +	2.2.29	Bioinformatics	Zcluster
ncbi blast parsers	1.0	Bioinformatics	Zcluster
ncbi_toolkit	12.0.0	Bioinformatics	Zcluster
NETCDF	3.6.3, 4.1.3, 4.3.2	Library	Sapelo
NETCDF	3.6.3, 4.1.3	Library	Zcluster
netCDF4-python	1.0.5	Library	Zcluster
netlogo	5.0	Other	Zcluster
Newbler	2.6	Bioinformatics	Sapelo
Newbler	2.6	Bioinformatics	Zcluster
Newick-utils	1.6	Bioinformatics	Zcluster
ngopt	20140604	Bioinformatics	Zcluster
ngsplot	2.6.1	Bioinformatics	Zcluster
NGS QC Toolkit	2.3.3	Bioinformatics	Zcluster
Ngsutils	0.5.0c	Bioinformatics	Zcluster
NH PhyloBayes	0.2.3	Bioinformatics	Zcluster
nhPhyML	01/2012	Bioinformatics	Zcluster
NovelSeq	1.0.2	Bioinformatics	Zcluster
NovoAlign	2.07.18	Bioinformatics	Zcluster
NPUTE	v1	Bioinformatics	Zcluster
nseg	04182013	Bioinformatics	Zcluster
numexp	1.4.2	Other	Zcluster
NWCHEM	6.5	Chemistry	Sapelo
NWCHEM	6.3.2	Chemistry	Zcluster
NxTrim	v0.3.2-alpha	Bioinformatics	Sapelo
NxTrim	0.3.1-alpha	Bioinformatics	Zcluster
Oases	0.2.02, 0.2.8	Bioinformatics	Zcluster
OligoArray	2.1	Bioinformatics	Zcluster
OligoArrayAux	3.8	Bioinformatics	Zcluster
opal	2.0.0	Bioinformatics	Zcluster
Open Babel	2.3.1	Chemistry	Zcluster
OpenBUGS	3.2.2	Statistics	Zcluster
OpenCL	1.0, 1.1	Programming	Zcluster
OpenCV	3.0	Other	Sapelo
OpenCV	2.3.1, 2.4.4	Other	Zcluster
OpenSees	2015.02.26	Other	Zcluster
opera	1.3.1	Bioinformatics	Zcluster
Oqtans	0.1	Bioinformatics	Zcluster
ORCA	3.0.3	Chemistry	Sapelo
ORCA	3.0.3	Chemistry	Zcluster
Orthagogue	1.0.3	Bioinformatics	Zcluster
OrthoFinder	0.2.5	Bioinformatics	Zcluster
OrthoMCL	2.0.9	Bioinformatics	Zcluster
OSPREY	2.0	Bioinformatics	Zcluster
p4	r231	Bioinformatics	Zcluster
p7zip	9.20.1	Other	Zcluster
PacBioToCA	8.2beta-binary	Bioinformatics	Zcluster
pagan	0.39	Bioinformatics	Zcluster
pagit	v1	Bioinformatics	Zcluster
Pairfq	0.14.1	Bioinformatics	Zcluster
PAML	4.8	Bioinformatics	Zcluster
pandas	0.16.0	Other	Sapelo
pandaseq	2.0	Bioinformatics	Zcluster
Papara_nt	2.1.2	Bioinformatics	Zcluster
ParMETIS	3.2.0, 4.0.3	Math Library	Zcluster
Paradigm	0.1-9	Bioinformatics	Zcluster
Paradigmshift	1.0	Bioinformatics	Zcluster
Parseq	02	Bioinformatics	Zcluster
ParseRNAseq	1.0	Bioinformatics	Zcluster
PartitionFinder	2.0.0-pre11	Bioinformatics	Zcluster
PASA	2.0.2	Bioinformatics	Zcluster
PASHA	1.0.6	Bioinformatics	Zcluster
PASTA	1.6.4	Bioinformatics	Zcluster
PatMaN	1.2.2	Bioinformatics	Zcluster
Paup	4a147	Bioinformatics	Sapelo
pbh5tools	0.8.0	Bioinformatics	Zcluster
PBSuite	15.8.24	Bioinformatics	Sapelo
PBSuite	15.2.20	Bioinformatics	Zcluster
Peakranger	1.18	Bioinformatics	Sapelo
PEAR	0.9.6	Bioinformatics	Zcluster
Perl	5.14.1	Programming	Zcluster
perM	0.4.0	Bioinformatics	Zcluster
PETSc	3.1-p8, 3.4.2	Math Library	Zcluster
Pfam_scan	04282012	Bioinformatics	Zcluster
pftools	2.3.5	Bioinformatics	Zcluster
PGDBG	12.10	Debugger	Zcluster
PGI Compilers	2014	Compiler	Sapelo
PGI Compilers	2010, 2011, 2012, 2013, 2014	Compiler	Zcluster
PGPROF	12.10	Profiler	Zcluster
PHASE	2.1.1.linux	Bioinformatics	Zcluster
phobius	1.01	Bioinformatics	Zcluster
phred/phrap/conced		Bioinformatics	Zcluster
Phyldog		Bioinformatics	Zcluster
PhyloBayes	3.3b	Bioinformatics	Zcluster
PhyloBayes-MPI	1.3b, 1.4e	Bioinformatics	Zcluster
Phylip	3.69	Bioinformatics	Zcluster
PHYML	20110919	Bioinformatics	Zcluster
picard	1.135	Bioinformatics	Sapelo
picard	1.137	Bioinformatics	Zcluster
picrust	1.0.0	Bioinformatics	Zcluster
pileup	0.6	Bioinformatics	Zcluster
pindel	0.2.4t	Bioinformatics	Zcluster
pknotsRG	1.3	Bioinformatics	Zcluster
platanus	1.2.1	Bioinformatics	Zcluster
platypus	0.8.1	Bioinformatics	Sapelo
PLEK	1.2	Bioinformatics	Sapelo
plink	1.07, 1.9-beta3	Bioinformatics	Zcluster
popbam	0.3	Bioinformatics	Zcluster
prank	100802	Bioinformatics	Zcluster
Primer3	2.3.4	Bioinformatics	Zcluster
PRINSEQ	0.20.4	Bioinformatics	Sapelo
PRINSEQ	0.20.3	Bioinformatics	Zcluster
proovread	2.12	Bioinformatics	Sapelo
proovread	2.12	Bioinformatics	Zcluster
Prokka	1.11	Bioinformatics	Zcluster
protobuf	2.4.1, 2.6.1, 3.0.0-beta1	Other	Sapelo
protobuf	2.6.1	Other	Zcluster
Prottest3	3.2.1	Bioinformatics	Zcluster
psmc	0.6.4-r33	Bioinformatics	Zcluster
ptRNApred	1.0	Bioinformatics	Zcluster
PuMA	0.904	Bioinformatics	Zcluster
pyfasta	0.5.2	Other, Programming	Zcluster
pydev	3.3.3	Other, Programming	Zcluster
pyDNase	0.2.3	Bioinformatics	Zcluster
pynast	1.2	Bioinformatics	Zcluster
PyNIO	1.4.1	Other	Zcluster
pyRAD	3.0.64	Bioinformatics	Sapelo
pyRAD	3.0.61	Bioinformatics	Zcluster
pysam	0.8.1	Bioinformatics	Zcluster
PyTables	2.3.1	Bioinformatics	Zcluster
Python	2.6.6, 2.7.8, 3.4.3	Programming	Sapelo
Python	2.4.3, 2.7.2, 2.7.8, 3.3.0. 3.4.0	Programming	Zcluster
Qiime	1.7.0	Bioinformatics	Zcluster
qeseq	0.2.2	Bioinformatics	Zcluster
QT	4.8.5	Other	Zcluster
QTL Cartographer	1.17j	Bioinformatics	Zcluster
quake	0.3.4	Bioinformatics	Zcluster
quast	3.1	Bioinformatics	Zcluster
Quantum Espresso	4.3.2, 5.0.2	Chemistry	Zcluster
R	3.1.2, 3.2.1, 3.2.3	Statistics	Sapelo
R	2.14.0, 2.15.0, 2.15.2, 3.0.0, 3.0.2, 3.0.3, 3.1.0, 3.1.1, 3.2.0, 3.2.3	Statistics	Zcluster
RACA	0.9.1.1	Bioinformatics	Zcluster
RADnome	0.0.1-7-25	Bioinformatics	Zcluster
RANDFOLD	2.0	Bioinformatics	Zcluster
RAPSearch2	2.23	Bioinformatics	Sapelo
RAPSearch2	2.17	Bioinformatics	Zcluster
RATT	1.0	Bioinformatics	Zcluster
RAxML	8.2.4	Bioinformatics	Sapelo
RAxML	8.2.4	Bioinformatics	Zcluster
RAxML-Light	1.0.5	Bioinformatics	Zcluster
RCCBatchBlast	5.0	Bioinformatics	Zcluster
RCCBatchBlastPlus	1.0	Bioinformatics	Zcluster
READemption	0.3.7	Bioinformatics	Sapelo
REAPR	1.0.16	Bioinformatics	Zcluster
RECON	1.08	Bioinformatics	Zcluster
RepeatExplorer	02/2015	Bioinformatics	Zcluster
Repeatmasker	4.0.5	Bioinformatics	Sapelo
Repeatmasker	4.0.5	Bioinformatics	Zcluster
Repeatmodeler	1.0.8	Bioinformatics	Sapelo
Repeatmodeler	1.0.8	Bioinformatics	Zcluster
Reptile	1.1	Bioinformatics	Zcluster
RepeatScout	1.05	Bioinformatics	Zcluster
riboPicker	0.4.3	Bioinformatics	Zcluster
RIP	4	Other	Zcluster
RITA	1.0.1	Bioinformatics	Zcluster
RMBlast	2.2.27	Bioinformatics	Zcluster
Rmpi	0.5-9, 0.6-1, 0.6-3, 0.6-5	Programming	Zcluster
RNA-SeQC	1.1.8	Bioinformatics	Zcluster
RNAmmer	1.2	Bioinformatics	Sapelo
RNAmmer	1.2	Bioinformatics	Zcluster
RNAprof	2.0	Bioinformatics	Zcluster
rnaQUAST	0.3.0	Bioinformatics	Zcluster
RNAshapes	2.1.6	Bioinformatics	Zcluster
RNAz	2.1	Bioinformatics	Zcluster
rnnotator	2.4.12	Bioinformatics	Zcluster
Rockhopper	2.0.2	Bioinformatics	Zcluster
rpy	1.0.3	Other	Zcluster
rpy2	2.4.3	Other	Zcluster
Roche	2.6	Bioinformatics	Zcluster
RogueNaRok	1.0	Bioinformatics	Zcluster
ROOT	5.34.09	Library	Zcluster
RSAT (RSA-tools)	1.0	Bioinformatics	Zcluster
RSEM	1.2.20	Bioinformatics	Sapelo
RSEM	1.2.20	Bioinformatics	Zcluster
RSEG	0.4.8NC	Bioinformatics	Zcluster
RSeQC	2.6.3	Bioinformatics	Zcluster
rspr	1.2.2	Other	Zcluster
RUM	1.11	Bioinformatics	Zcluster
Sage	6.3	Other	Zcluster
sailfish	0.6.3	Bioinformatics	Zcluster
sambamba	0.4.7	Bioinformatics	Zcluster
samblaster	0.1.15	Bioinformatics	Zcluster
samtools	1.2.0	Bioinformatics	Sapelo
samtools	1.2	Bioinformatics	Zcluster
SATé	2.2.7	Bioinformatics	Zcluster
sbt	0.13.9	Other, Programming	Zcluster
scala	2.11.7, 2.12.0-M3	Other, Programming	Zcluster
ScaLAPACK	2.0.2	Math Library	Zcluster
Scripture	3/20/2015	Bioinformatics	Sapelo
Scripture	3/20/2015	Bioinformatics	Zcluster
SEAStAR	0.4.8	Bioinformatics	Zcluster
segemehl	0.1.9	Bioinformatics	Zcluster
seqMINER	1.3.3e	Bioinformatics	Zcluster
seqtk	1.0-r63-dirty	Bioinformatics	Sapelo
seqtk	1.0-r63-dirty	Bioinformatics	Zcluster
SEQuel	1.0.2	Bioinformatics	Zcluster
sga	0.10.14	Bioinformatics	Sapelo
SHE-RA	012012	Bioinformatics	Zcluster
SHORE	0.9.3	Bioinformatics	Zcluster
SHOREmap	2.0, 3.0	Bioinformatics	Zcluster
sicer	1.1	Bioinformatics	Zcluster
sickle	1.200	Bioinformatics	Zcluster
SigHunt	1.0	Bioinformatics	Zcluster
SignalIP	4.1c	Bioinformatics	Zcluster
SISRS	1.0	Bioinformatics	Zcluster
SiZer	07022012	Bioinformatics	Zcluster
slclust	04282012	Bioinformatics	Zcluster
SMRT-Analysis	2.3.0	Bioinformatics	Sapelo
SMRT-Analysis	2.3.0	Bioinformatics	Zcluster
SNAP	2010-7-28	Bioinformatics	Zcluster
SNAPP	1.1.4	Bioinformatics	Zcluster
SnoReport	1.3	Bioinformatics	Zcluster
snow	0.3-8, 0.3-10, 0.3-12, 0.3-13	Statistics	Zcluster
snowhite	1.1.4	Bioinformatics	Zcluster
snpEff	4.11	Bioinformatics	Zcluster
SNPhylo	20140701	Bioinformatics	Zcluster
Soap2	2.21	Bioinformatics	Zcluster
SOAPaligner	2.21	Bioinformatics	Zcluster
SOAPdenovo	1.05	Bioinformatics	Zcluster
SOAPdenovo-trans	1.01	Bioinformatics	Zcluster
SOAPdenovo2	r240	Bioinformatics	Sapelo
SOAPdenovo2	r223, r240	Bioinformatics	Zcluster
SOAPsnp	1.03	Bioinformatics	Zcluster
SomaticCall	42811	Bioinformatics	Zcluster
Spark	1.6.0	Other	Sapelo
spimap	1.1	Bioinformatics	Zcluster
SPAdes	3.7.0	Bioinformatics	Sapelo
SPAdes	3.6.2	Bioinformatics	Zcluster
SparseAssembler	2012/06/15	Bioinformatics	Zcluster
sprai	0.9.9.10	Bioinformatics	Zcluster
Splitaake	1.0	Bioinformatics	Zcluster
spolpred	09/10/2013	Bioinformatics	Zcluster
sprspace	1.0	Other	Zcluster
Sputnik	03/20/2013	Bioinformatics	Zcluster
SRAToolKit	2.5.7	Bioinformatics	Sapelo
SRA	2.3.4-2	Bioinformatics	Zcluster
SSAHA2	2.5.5	Bioinformatics	Zcluster
SSAKE	v3-8	Bioinformatics	Zcluster
SSPACE	2.0	Bioinformatics	Zcluster
ssr_pipeline	0.95	Bioinformatics	Zcluster
stacks	1.35	Bioinformatics	Sapelo
stacks	1.35	Bioinformatics	Zcluster
STAMPY	1.0.21	Bioinformatics	Zcluster
STAR	2.4.2a	Bioinformatics	Sapelo
STAR	2.4.1c	Bioinformatics	Zcluster
STEM	2.0	Bioinformatics	Zcluster
strauto	0.3.1	Bioinformatics	Zcluster
StringTie	1.2.0	Bioinformatics	Sapelo
StringTie	1.1.2	Bioinformatics	Zcluster
structure	2.3.4	Bioinformatics	Sapelo
structure	2.3.4	Bioinformatics	Zcluster
structurama	2.0	Bioinformatics	Zcluster
subread	1.4.6	Bioinformatics	Zcluster
suma_package	1.0	Bioinformatics	Zcluster
SUNTANS	20150923	Other	Sapelo
SUNTANS	697-trunk, 784	Other	Zcluster
SuperLU	4.3	Math Library	Zcluster
SuperLU_dist	3.3	Math Library	Zcluster
SUPPA	06122015	Bioinformatics	Sapelo
SVDetect	r0.7m	Bioinformatics	Zcluster
SVDquartets	1.0	Bioinformatics	Zcluster
SWIG	3.0.2	Programming	Zcluster
T-Coffee	9.03.r1318	Bioinformatics	Zcluster
tabix	0.2.5	Bioinformatics	Zcluster
TagCleaner	0.13	Bioinformatics	Zcluster
Tandem Repeats Finder	4.07b	Bioinformatics	Zcluster
TAPDANCE	03/20/2013	Bioinformatics	Zcluster
tassel	5.2.20	Bioinformatics	Zcluster
tax2tree	1.0	Bioinformatics	Zcluster
TEClass	2.1	Bioinformatics	Zcluster
TEMP	1.0.4	Bioinformatics	Zcluster
TEToolkit	1.5.0	Bioinformatics	Zcluster
tgicl	2.1	Bioinformatics	Zcluster
Theano	0.8.0	Other	Sapelo
Theano	0.8.0	Other	Zcluster
TIGER	1.02	Bioinformatics	Zcluster
tmhmm	2.0c	Bioinformatics	Zcluster
tophat	2.0.14	Bioinformatics	Sapelo
tophat	2.0.14	Bioinformatics	Zcluster
trans-abyss	1.4.4	Bioinformatics	Zcluster
TransDecoder	2.0.1	Bioinformatics	Sapelo
TransDecoder	2.0.1	Bioinformatics	Zcluster
Transrate	1.0.1	Bioinformatics	Sapelo
Tracer	v 1.5	Bioinformatics	Zcluster
TRE	4.07b	Bioinformatics	Zcluster
TreeFix	1.1.10	Bioinformatics	Zcluster
TreeFix-DTL	1.0.2	Bioinformatics	Zcluster
treemix	1.12	Bioinformatics	Zcluster
Triangle	1.6	Math Library	Zcluster
trimal	1.4	Bioinformatics	Zcluster
trimmomatic	0.33	Bioinformatics	Sapelo
trimmomatic	0.32	Bioinformatics	Zcluster
TrimGalore	4.0	Bioinformatics	Sapelo
TrimGalore	0.3.7	Bioinformatics	Zcluster
trimreads	07232013	Bioinformatics	Zcluster
Trinity	2.06	Bioinformatics	Sapelo
Trinity	2.06	Bioinformatics	Zcluster
Trinotate	r20131110	Bioinformatics	Zcluster
tRNAscan-SE	1.23	Bioinformatics	Zcluster
UClust	1.2.22q	Bioinformatics	Zcluster
UNAFold	3.8	Bioinformatics	Zcluster
UPP	2.0	Other	Zcluster
usearch	8.0.1623	Bioinformatics	Sapelo
usearch	7.0.1090_i86	Bioinformatics	Zcluster
UCSC	07-11-2014	Bioinformatics	Zcluster
varscan	2.3.8	Bioinformatics	Zcluster
vcftools	0.1.12b	Bioinformatics	Sapelo
vcftools	0.1.12a	Bioinformatics	Zcluster
velvet	1.2.10	Bioinformatics	Sapelo
velvet	1.2.08, 1.2.10	Bioinformatics	Zcluster
VelvetOptimiser	2.2.5	Bioinformatics	Sapelo
VelvetOptimiser	2.2.5	Bioinformatics	Zcluster
VEP	76	Bioinformatics	Zcluster
VICUNA	1.3	Bioinformatics	Zcluster
ViennaRNA	1.8.5, 2.1.7	Bioinformatics	Zcluster
virtualenv	1.8.1	Other	Zcluster
vmatch	2.1.6	Bioinformatics	Zcluster
VMD	1.9.1	Chemistry	Zcluster
voxnet	0.1	Other	Sapelo
voxnet	0.1	Other	Zcluster
vsearch	1.10.1	Bioinformatics	Sapelo
vsearch	1.1.0	Bioinformatics	Zcluster
VTK	5.8.0	Other	Zcluster
webLogo	3.3	Bioinformatics	Zcluster
weka	3.6.10	Other	Zcluster
wgs	8.2	Bioinformatics	Sapelo
wgs	8.2beta-binary	Bioinformatics	Zcluster
wigToBigWig	v4	Bioinformatics	Zcluster
WinHap	2.0	Bioinformatics	Sapelo
WISE2	2.4.1	Bioinformatics	Zcluster
WPS	3.7	Other	Sapelo
WPS	3.4.1	Other	Zcluster
WRF	3.7	Other	Sapelo
WRF	3.4.1	Other	Zcluster
WU Blast	2.2.6	Bioinformatics	Sapelo
WU Blast	2.2.6	Bioinformatics	Zcluster
xgboost	0.4a30	Other	Zcluster
XP-CLR	1.0	Bioinformatics	Zcluster
Xscape	11182014	Bioinformatics	Zcluster
yasra	2.3	Bioinformatics	Zcluster
yt	3.2.3	Other	Sapelo
zlib	1.2.5, 1.2.8	Library	Sapelo
Zorro	2.2	Bioinformatics	Zcluster

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 | <span id="B"></span>[[BamBam]] || 1.4 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Zcluster|Zcluster]] || [[File:Up20.png|20px|link=#top]]
 |-
-[[bam2fastq]] || 1.1.0 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Zcluster|Zcluster]] || [[File:Up20.png|20px|link=#top]]
+| [[bam2fastq]] || 1.1.0 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Zcluster|Zcluster]] || [[File:Up20.png|20px|link=#top]]
 |-
 | [[Bamtools-Sapelo|Bamtools]] || 2.4.0 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Sapelo|Sapelo]] || [[File:Up20.png|20px|link=#top]]

Software-old: Difference between revisions

Revision as of 13:19, 29 April 2016

Installed Software List

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