Módulos bioinformática

Tools

Module Name

Version

Note

ABySS 2.0 abyss/git-gcc 2.00  
Anvio intelpython/3.5    
augustus augustus/3.3 3.30  
bbmap / bbtool bbmap/37.36 37.36  
bbtool bbmap/37.36 37.36  
bcftools bcftools/1.5 1.50  
bedtools bedtools/2.25.0 2.25.0  
bioawk bioawk/git-gcc    
BioPython intelpython/2.7, intelpython/3.5, python/3.4.5, python/3.5.2 1.70  
BLAST ncbi-blast/2.6.0 2.6.0  
Bowtie2 bowtie2/2.2.9 2.2.9  
bwa bwa/0.5.15 0.5.15  
csvkit intelpython/2.7, intelpython/3.5, python/3.4.5, python/3.5.2    
ddocent      
Diamond diamond/git    
emboss emboss/gcc, emboss/6.2.2 6.2.2  
entrez entrez/git-gcc    
exonerate exonerate/2.2.0 2.2.0  
fastqc fastqc/v0.11.5 0.11.5  
fastx_toolkit fastx_toolkit/0.0.14 0.0.14  
freebayes freebayes/git    
gatk gatk/3.8-0 3.8.0  
GeneMarkET-ES GeneMarkET-ES/4.32.0 4.32.0  
GeneMarkSuite GeneMarkSuite/4.30.0 4.30.0  
HTSLib htslib/git 1.50  
IDBA-UD idba-ud/git    
kentUtils kentUtils/git    
lastaligner lastaligner/719 719.00  
lastz lastz/1.03.73 1.03.73  
maker maker/2.31.9 2.31.9  
MaSuRCA MaSuRCA/3.2.2 3.2.2  
Meraculous2 meraculous/v2.2.4 2.2.4  
MultiQC module load anaconda2/4.2.0    
MUMmer mummer/4.0.0beta1 4.0.0  
ncbi-blast ncbi-blast/2.6.0 2.6.0  
nseg nseg/gcc    
Python      
Qiime module load anaconda2/4.2.0, source activate qiime2-2017.9, source activate qiime1    
Quast module load anaconda2/4.2.0 4.2.0  
R R/3.3.2 3.3.2  
readseq readseq/java    
RepeatMasker RepeatMasker/4.0.6 RepeatMasker/4.0.7 4.0.6, 4.0.7  
RepeatScout RepeatScout/1.0.5 1.0.5  
Samtools samtools/git    
seqkit seqkit/0.7.1 0.7.1  
seqtk seqtk/git    
skewer skewer/git    
snap snap/0.15.4 0.15.4  
SOAPdenovo SOAPdenovo2/git    
Space sspace/basic    
Spades SPAdes/3.11.0 3.11.0  
SRA Tools sra-tools/git    
Stacks stacks/1.47    
SubRead subread/1.5.1-source    
Taxon Kit taxonkit/gcc    
taxonkit taxonkit/gcc    
TopHat tophat/2.1.1    
trf trf/409    
trim galore TrimGalore/0.4.3    
Trimmomatic trimmomatic/0.36    
Tuxedo suit (= Bowtie2, TopHat, Cufflink) cufflinks/2.2.1    
vcf tools vcftools/0.1.13    
velvet velvet/1.2.10 velvet/1.2.10-301kmer-openmp