| Classification | Module |
|---|
| NGS | BCFtools/1.2 Picard/1.139 CirSeq/3
GATK/3.1-1
GATK/3.7
HTseq/0.5.4a*
HTseq/0.6.1p1
IGV/1.5.30
bedtools/2.17.0*
bedtools/2.19.1
bowtie/0.12.7*
bowtie/1.0.1
bowtie/2.1.0
bowtie/2.2.3*
bwa/0.7.9a
fastx/0.0.13
lastz
ngsplot
picard
samtools/0.1.18*
samtools/0.1.19 |
| Phylogenetics | mrbayes/3.1.2
paml/4.8
PhyML/3.1 |
| RNA | ViennaRNA/2.1.6*
mirdeep2/2.0.0.5*
randfold/2.0* |
| RNA-Seq | STAR/2.30e*
cufflinks/0.8.3
cufflinks/2.0.0
cuffinks/2.0.2*
cufflinks/2.1.1
misopy/0.5.2
rsem/1.2.4
tablemaker/2.1.1*
tophat/1.0.14
tophat/2.0.9*
tophat/2.0.10
tophat/2.0.13
transdecoder/2.0
trinity/7.17.14 |
Statistical Genetics
/GWAS | ancestrymap/6210
fbat/2.0.3
haploview/4.1
impute/2.0.3
mach/1.0.16
merlin/1.1.2
pbat/3.61
pedcheck/1.1
plink/1.06
plinkseq/0.10
vcftools/0.1.12b |