Software-old: Difference between revisions

From Research Computing Center Wiki
Jump to navigation Jump to search
No edit summary
No edit summary
Line 602: Line 602:


|}
|}
== Computational Chemistry  ==


[[Category:Zcluster]]
[[Category:Zcluster]]

Revision as of 13:35, 14 January 2013

Installed Software List

Last updated 2013-01-14.

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

Name Version Website Category Cluster
454 Software +version+ +website+ +category+ +cluster+
aaarf +version+ +website+ +category+ +cluster+
ABySS +version+ +website+ +category+ +cluster+
ABySS-rcluster +version+ +website+ +category+ +cluster+
AlignACE +version+ +website+ +category+ +cluster+
ALLPATHS-LG +version+ +website+ +category+ +cluster+
amos +version+ +website+ +category+ +cluster+
AmpliconNoise +version+ +website+ +category+ +cluster+
ARB +version+ +website+ +category+ +cluster+
Artemis +version+ +website+ +category+ +cluster+
AUGUSTUS +version+ +website+ +category+ +cluster+
AVID +version+ +website+ +category+ +cluster+
Bali-phy-rcluster +version+ +website+ +category+ +cluster+
bam2fastq +version+ +website+ +category+ +cluster+
BEAST +version+ +website+ +category+ +cluster+
454 Software +version+ +website+ +category+ +cluster+
aaarf +version+ +website+ +category+ +cluster+
ABySS +version+ +website+ +category+ +cluster+
ABySS-rcluster +version+ +website+ +category+ +cluster+
AlignACE +version+ +website+ +category+ +cluster+
ALLPATHS-LG +version+ +website+ +category+ +cluster+
amos +version+ +website+ +category+ +cluster+
AmpliconNoise +version+ +website+ +category+ +cluster+
ARB +version+ +website+ +category+ +cluster+
Artemis +version+ +website+ +category+ +cluster+
AUGUSTUS +version+ +website+ +category+ +cluster+
AVID +version+ +website+ +category+ +cluster+
Bali-phy-rcluster +version+ +website+ +category+ +cluster+
bam2fastq +version+ +website+ +category+ +cluster+
BEAST +version+ +website+ +category+ +cluster+
BEDTools +version+ +website+ +category+ +cluster+
BEST Bayesian +version+ +website+ +category+ +cluster+
BEST Binding +version+ +website+ +category+ +cluster+
BFast +version+ +website+ +category+ +cluster+
Bioconductor +version+ +website+ +category+ +cluster+
BioPerl +version+ +website+ +category+ +cluster+
BioPython +version+ +website+ +category+ +cluster+
Bismark Bisulfite Mapper +version+ +website+ +category+ +cluster+
BiSS +version+ +website+ +category+ +cluster+
Blastall +version+ +website+ +category+ +cluster+
Blat +version+ +website+ +category+ +cluster+
BMGE +version+ +website+ +category+ +cluster+
bowtie +version+ +website+ +category+ +cluster+
bowtie2 +version+ +website+ +category+ +cluster+
boxshade +version+ +website+ +category+ +cluster+
breakdancer +version+ +website+ +category+ +cluster+
brownie +version+ +website+ +category+ +cluster+
BS Seeker +version+ +website+ +category+ +cluster+
Burrows-Wheeler Aligner (BWA) +version+ +website+ +category+ +cluster+
CAP3-rcluster IOB +version+ +website+ +category+ +cluster+
cd-hit +version+ +website+ +category+ +cluster+
cdbfasta +version+ +website+ +category+ +cluster+
CEAS +version+ +website+ +category+ +cluster+
CEGMA +version+ +website+ +category+ +cluster+
CELLO +version+ +website+ +category+ +cluster+
circos +version+ +website+ +category+ +cluster+
ClustalW +version+ +website+ +category+ +cluster+
Coding Potential Calculator +version+ +website+ +category+ +cluster+
Codon Usage +version+ +website+ +category+ +cluster+
CodonW +version+ +website+ +category+ +cluster+
CONSEL +version+ +website+ +category+ +cluster+
consensus-v6c +version+ +website+ +category+ +cluster+
cortex_con +version+ +website+ +category+ +cluster+
cortex_var +version+ +website+ +category+ +cluster+
Count +version+ +website+ +category+ +cluster+
count-rcluster +version+ +website+ +category+ +cluster+
CREST +version+ +website+ +category+ +cluster+
cufflinks +version+ +website+ +category+ +cluster+
cutadapt +version+ +website+ +category+ +cluster+
DLCoal +version+ +website+ +category+ +cluster+
ea-utils +version+ +website+ +category+ +cluster+
edena +version+ +website+ +category+ +cluster+
EMBOSS-rcluster +version+ +website+ +category+ +cluster+
emmix +version+ +website+ +category+ +cluster+
ESTScan +version+ +website+ +category+ +cluster+
evm (EVidenceModeler) +version+ +website+ +category+ +cluster+
ExaML +version+ +website+ +category+ +cluster+
exonerate +version+ +website+ +category+ +cluster+
FAR +version+ +website+ +category+ +cluster+
FAR (Flexible Adapter Remover) +version+ +website+ +category+ +cluster+
FASTA +version+ +website+ +category+ +cluster+
fasta format cleaner +version+ +website+ +category+ +cluster+
FastQC +version+ +website+ +category+ +cluster+
fasttree +version+ +website+ +category+ +cluster+
FastX +version+ +website+ +category+ +cluster+
FIRE +version+ +website+ +category+ +cluster+
FitModel +version+ +website+ +category+ +cluster+
FLASH +version+ +website+ +category+ +cluster+
FrameDP +version+ +website+ +category+ +cluster+
GapFiller +version+ +website+ +category+ +cluster+
gatk +version+ +website+ +category+ +cluster+
Gblocks +version+ +website+ +category+ +cluster+
Gblocks-rcluster +version+ +website+ +category+ +cluster+
GCG (Wisconsin Package) +version+ +website+ +category+ +cluster+
GeneMark +version+ +website+ +category+ +cluster+
Genezilla +version+ +website+ +category+ +cluster+
Genome +version+ +website+ +category+ +cluster+
GenomeMapper +version+ +website+ +category+ +cluster+
GenomeTools +version+ +website+ +category+ +cluster+
gfftosam (BaseQV) +version+ +website+ +category+ +cluster+
Glimmer +version+ +website+ +category+ +cluster+
GlimmerHMM +version+ +website+ +category+ +cluster+
gmap +version+ +website+ +category+ +cluster+
gmap-gsnap +version+ +website+ +category+ +cluster+
go-perl +version+ +website+ +category+ +cluster+
gpu-blast +version+ +website+ +category+ +cluster+
Hmmer +version+ +website+ +category+ +cluster+
htseq +version+ +website+ +category+ +cluster+
I-TASSER +version+ +website+ +category+ +cluster+
IDEG +version+ +website+ +category+ +cluster+
igb +version+ +website+ +category+ +cluster+
IGV +version+ +website+ +category+ +cluster+
IMa +version+ +website+ +category+ +cluster+
indel-Seq-Gen +version+ +website+ +category+ +cluster+
InStruct +version+ +website+ +category+ +cluster+
inteRNA +version+ +website+ +category+ +cluster+
iParameterEstimation (iPE) +version+ +website+ +category+ +cluster+
iprscan (InterProScan) +version+ +website+ +category+ +cluster+
iscan +version+ +website+ +category+ +cluster+
Jellyfish +version+ +website+ +category+ +cluster+
k-link +version+ +website+ +category+ +cluster+
kaas +version+ +website+ +category+ +cluster+
KiNG +version+ +website+ +category+ +cluster+
LAGAN +version+ +website+ +category+ +cluster+
LASTZ +version+ +website+ +category+ +cluster+
LDDist +version+ +website+ +category+ +cluster+
LDhat +version+ +website+ +category+ +cluster+
libsequence +version+ +website+ +category+ +cluster+
LocARNA +version+ +website+ +category+ +cluster+
lsa +version+ +website+ +category+ +cluster+
LUCY-rcluster +version+ +website+ +category+ +cluster+
macs +version+ +website+ +category+ +cluster+
mafft +version+ +website+ +category+ +cluster+
maker +version+ +website+ +category+ +cluster+
MAQ +version+ +website+ +category+ +cluster+
MaTogff +version+ +website+ +category+ +cluster+
MCL +version+ +website+ +category+ +cluster+
MCL-rcluster +version+ +website+ +category+ +cluster+
MDscan +version+ +website+ +category+ +cluster+
megan +version+ +website+ +category+ +cluster+
MEME +version+ +website+ +category+ +cluster+
MFOLD +version+ +website+ +category+ +cluster+
Migrate +version+ +website+ +category+ +cluster+
Minia +version+ +website+ +category+ +cluster+
MIRA +version+ +website+ +category+ +cluster+
miRanda +version+ +website+ +category+ +cluster+
mosaik +version+ +website+ +category+ +cluster+
MOTHUR +version+ +website+ +category+ +cluster+
MOTHUR-rcluster +version+ +website+ +category+ +cluster+
mpiblast +version+ +website+ +category+ +cluster+
MrBayes +version+ +website+ +category+ +cluster+
mrfast +version+ +website+ +category+ +cluster+
MSA +version+ +website+ +category+ +cluster+
MSBlast +version+ +website+ +category+ +cluster+
MSPcrunch +version+ +website+ +category+ +cluster+
Multiz +version+ +website+ +category+ +cluster+
MUMmer +version+ +website+ +category+ +cluster+
MUSCLE +version+ +website+ +category+ +cluster+
mVISTA +version+ +website+ +category+ +cluster+
MyScanACE +version+ +website+ +category+ +cluster+
NCBI Blast +version+ +website+ +category+ +cluster+
NCBI Blast + +version+ +website+ +category+ +cluster+
ncbi blast parsers +version+ +website+ +category+ +cluster+
NCBI_database +version+ +website+ +category+ +cluster+
Newbler +version+ +website+ +category+ +cluster+
ngs_backbone +version+ +website+ +category+ +cluster+
NH PhyloBayes +version+ +website+ +category+ +cluster+
nhPhyML +version+ +website+ +category+ +cluster+
NovelSeq +version+ +website+ +category+ +cluster+
NovoAlign +version+ +website+ +category+ +cluster+
nupack +version+ +website+ +category+ +cluster+
Oases +version+ +website+ +category+ +cluster+
opal +version+ +website+ +category+ +cluster+
OSPREY +version+ +website+ +category+ +cluster+
p4 +version+ +website+ +category+ +cluster+
pagan +version+ +website+ +category+ +cluster+
PAML +version+ +website+ +category+ +cluster+
pandaseq +version+ +website+ +category+ +cluster+
Papara_nt +version+ +website+ +category+ +cluster+
PASHA +version+ +website+ +category+ +cluster+
PeakSplitter +version+ +website+ +category+ +cluster+
pebl +version+ +website+ +category+ +cluster+
pfamDNASearch +version+ +website+ +category+ +cluster+
Pfam_scan +version+ +website+ +category+ +cluster+
pftools +version+ +website+ +category+ +cluster+
phred/phrap/conced +version+ +website+ +category+ +cluster+
PHYLIP +version+ +website+ +category+ +cluster+
PhyloBayes +version+ +website+ +category+ +cluster+
PHYML +version+ +website+ +category+ +cluster+
picard +version+ +website+ +category+ +cluster+
PIIM +version+ +website+ +category+ +cluster+
plink +version+ +website+ +category+ +cluster+
PolyBayes-rcluster +version+ +website+ +category+ +cluster+
pplacer +version+ +website+ +category+ +cluster+
prank +version+ +website+ +category+ +cluster+
primegsr +version+ +website+ +category+ +cluster+
Primer3 +version+ +website+ +category+ +cluster+
PrIMETV +version+ +website+ +category+ +cluster+
PSLDoc +version+ +website+ +category+ +cluster+
PSORTb +version+ +website+ +category+ +cluster+
Pyrobayes,Mosaik,GigaBayes, +version+ +website+ +category+ +cluster+
pysam +version+ +website+ +category+ +cluster+
Qiime +version+ +website+ +category+ +cluster+
Qiime-rcluster +version+ +website+ +category+ +cluster+
QTL Cartographer +version+ +website+ +category+ +cluster+
quake +version+ +website+ +category+ +cluster+
RactIP +version+ +website+ +category+ +cluster+
RAxML +version+ +website+ +category+ +cluster+
RAxML-Light +version+ +website+ +category+ +cluster+
Ray +version+ +website+ +category+ +cluster+
RBR +version+ +website+ +category+ +cluster+
RCCBatchBlast +version+ +website+ +category+ +cluster+
RECON +version+ +website+ +category+ +cluster+
RECON +version+ +website+ +category+ +cluster+
RepeatFinder +version+ +website+ +category+ +cluster+
Repeatmasker +version+ +website+ +category+ +cluster+
RepeatModeler +version+ +website+ +category+ +cluster+
RepeatScout +version+ +website+ +category+ +cluster+
Reputer +version+ +website+ +category+ +cluster+
riboPicker +version+ +website+ +category+ +cluster+
RMBlast +version+ +website+ +category+ +cluster+
RNAz +version+ +website+ +category+ +cluster+
rnnotator +version+ +website+ +category+ +cluster+
Roche +version+ +website+ +category+ +cluster+
RSAT +version+ +website+ +category+ +cluster+
RSEM +version+ +website+ +category+ +cluster+
RUM +version+ +website+ +category+ +cluster+
samtools +version+ +website+ +category+ +cluster+
SATé +version+ +website+ +category+ +cluster+
scipio +version+ +website+ +category+ +cluster+
SeqClean +version+ +website+ +category+ +cluster+
SEQuel +version+ +website+ +category+ +cluster+
SHE-RA +version+ +website+ +category+ +cluster+
SHORE +version+ +website+ +category+ +cluster+
shorha +version+ +website+ +category+ +cluster+
SHRIMP +version+ +website+ +category+ +cluster+
sickle +version+ +website+ +category+ +cluster+
SiZer +version+ +website+ +category+ +cluster+
slclust +version+ +website+ +category+ +cluster+
SNAP +version+ +website+ +category+ +cluster+
snowhite +version+ +website+ +category+ +cluster+
snpEff +version+ +website+ +category+ +cluster+
SNVMix2 +version+ +website+ +category+ +cluster+
soap2 +version+ +website+ +category+ +cluster+
SOAPdenovo +version+ +website+ +category+ +cluster+
SOAPdenovo-trans +version+ +website+ +category+ +cluster+
SOAPdenovo2 +version+ +website+ +category+ +cluster+
socs +version+ +website+ +category+ +cluster+
SomaticCall +version+ +website+ +category+ +cluster+
spaln +version+ +website+ +category+ +cluster+
spimap +version+ +website+ +category+ +cluster+
SpliceGrapher +version+ +website+ +category+ +cluster+
splign +version+ +website+ +category+ +cluster+
SRA +version+ +website+ +category+ +cluster+
SSAHA2 +version+ +website+ +category+ +cluster+
SSPACE +version+ +website+ +category+ +cluster+
stacks +version+ +website+ +category+ +cluster+
STAMP +version+ +website+ +category+ +cluster+
STEM +version+ +website+ +category+ +cluster+
strauto +version+ +website+ +category+ +cluster+
structure +version+ +website+ +category+ +cluster+
SUPERSPLAT +version+ +website+ +category+ +cluster+
SVDetect +version+ +website+ +category+ +cluster+
SVM_Light +version+ +website+ +category+ +cluster+
T-Coffee +version+ +website+ +category+ +cluster+
T-Coffee-rcluster +version+ +website+ +category+ +cluster+
tabix +version+ +website+ +category+ +cluster+
tagdust +version+ +website+ +category+ +cluster+
Tandem Repeats Finder +version+ +website+ +category+ +cluster+
tassel +version+ +website+ +category+ +cluster+
tgicl +version+ +website+ +category+ +cluster+
TIGER +version+ +website+ +category+ +cluster+
tophat +version+ +website+ +category+ +cluster+
topHat-fusion-rcluster +version+ +website+ +category+ +cluster+
Tracer +version+ +website+ +category+ +cluster+
TreeBeST +version+ +website+ +category+ +cluster+
TreeView X +version+ +website+ +category+ +cluster+
Trinity +version+ +website+ +category+ +cluster+
tRNAscan-SE +version+ +website+ +category+ +cluster+
twinScan/n-Scan +version+ +website+ +category+ +cluster+
UNAFold +version+ +website+ +category+ +cluster+
usearch +version+ +website+ +category+ +cluster+
vcftools +version+ +website+ +category+ +cluster+
velvet +version+ +website+ +category+ +cluster+
VelvetOptimiser +version+ +website+ +category+ +cluster+
ViennaRNA +version+ +website+ +category+ +cluster+
vmatch +version+ +website+ +category+ +cluster+
wcdest +version+ +website+ +category+ +cluster+
wigToBigWig +version+ +website+ +category+ +cluster+
WISE2 +version+ +website+ +category+ +cluster+
WU Blast +version+ +website+ +category+ +cluster+
yasra +version+ +website+ +category+ +cluster+