User Tools

Site Tools


list-of-software

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revisionPrevious revision
Next revision
Previous revision
list-of-software [2021/05/20 17:31] aorthlist-of-software [2023/12/18 08:55] (current) aorth
Line 19: Line 19:
 |[[angsd-software|angsd]]|0.910|''module load angsd/0.910''| | |[[angsd-software|angsd]]|0.910|''module load angsd/0.910''| |
 |[[annovar-software|annovar]]|2016-02-01|''module load annovar/2016-02-01''| | |[[annovar-software|annovar]]|2016-02-01|''module load annovar/2016-02-01''| |
 +|[[antismash-software|antismash]]|7.0.0|''module load antismash/7.0.0''| |
 |[[any2fasta-software|any2fasta]]|0.4.2|''module load any2fasta/0.4.2''| | |[[any2fasta-software|any2fasta]]|0.4.2|''module load any2fasta/0.4.2''| |
 |apt|1.14.3|''module load apt/1.14.3''| | |apt|1.14.3|''module load apt/1.14.3''| |
 |[[arb-software|arb]]|6.0.3|''module load arb/6.0.3''| | |[[arb-software|arb]]|6.0.3|''module load arb/6.0.3''| |
 |[[artemis-software|artemis]]|16.0.0|''module load act/16.0.0''| | |[[artemis-software|artemis]]|16.0.0|''module load act/16.0.0''| |
 +|[[artic-software|artic]]|1.2.3|''module load artic/1.2.3''| |
 +|[[artic-tools-software|artic-tools]]|0.3.1|''module load artic-tools/0.3.1''| |
 +|[[aspera-cli-software|aspera-cli]]|4.15.0|''module load aspera-cli/4.15.0''| |
 |[[augustus-software|augustus]]|3.3|''module load augustus/3.3''| | |[[augustus-software|augustus]]|3.3|''module load augustus/3.3''| |
-|[[awscli-software|awscli]]|1.17.9|''module load awscli/1.17.9''| |+|[[awscli-software|awscli]]|2.4.0|''module load awscli/2''| |
 |[[bam-readcount-software|bam-readcount]]|0.8.0|''module load bam-readcount/0.8.0''| | |[[bam-readcount-software|bam-readcount]]|0.8.0|''module load bam-readcount/0.8.0''| |
 |[[bamtools-software|bamtools]]|2.5.1|''module load bamtools/2.5.1''| | |[[bamtools-software|bamtools]]|2.5.1|''module load bamtools/2.5.1''| |
 |[[barrnap-software|barrnap]]|0.9|''module load barrnap/0.9''| | |[[barrnap-software|barrnap]]|0.9|''module load barrnap/0.9''| |
 |bayescan|2.1|''module load bayescan/2.1''| | |bayescan|2.1|''module load bayescan/2.1''| |
-|[[bbmap-software|bbmap]]|38.67|''module load bbmap/38.67''| | +|[[bbmap-software|bbmap]]|38.95|''module load bbmap/38.95''| | 
-|[[bcftools-software|bcftools]]|1.11|''module load bcftools/1.11''| |+|[[bcftools-software|bcftools]]|1.15.1|''module load bcftools/1.15.1''| | 
 +|bcl2fastq|2.20.0.422|''bcl2fastq''| |
 |[[beagle-software|beagle]]|3.1.2|''module load beagle/3.1.2''| | |[[beagle-software|beagle]]|3.1.2|''module load beagle/3.1.2''| |
 |[[beast-software|beast]]|1.10.4|''module load beast/1.10.4''| | |[[beast-software|beast]]|1.10.4|''module load beast/1.10.4''| |
 +|[[beast2-software|beast2]]|2.6.4|''module load beast2/2.6.4''| |
 |[[bedops-software|bedops]]|2.4.29|''module load bedops/2.4.29''| | |[[bedops-software|bedops]]|2.4.29|''module load bedops/2.4.29''| |
 |[[bedtools-software|bedtools]]|2.29.0|''module load bedtools/2.29.0''| | |[[bedtools-software|bedtools]]|2.29.0|''module load bedtools/2.29.0''| |
Line 39: Line 45:
 |[[bitseq-software|bitseq]]|0.7.5|''module load bitseq/0.7.5''| | |[[bitseq-software|bitseq]]|0.7.5|''module load bitseq/0.7.5''| |
 |[[blasr-software|blasr]]|smrtanalysis-4.0.0|''module load blasr/smrtanalysis-4.0.0''| | |[[blasr-software|blasr]]|smrtanalysis-4.0.0|''module load blasr/smrtanalysis-4.0.0''| |
-|[[blast-software|blast]]|2.10.0+|''module load blast/2.10.0+''| |+|[[blast-software|blast]]|2.14.1+|''module load blast/2.14.1+''| |
 |[[blobtools-software|blobtools]]|0.9.19.3|''module load blobtools/0.9.19.3''| | |[[blobtools-software|blobtools]]|0.9.19.3|''module load blobtools/0.9.19.3''| |
-|blat|06-Aug-2013|''module load blat/06-Aug-2013''| | +|[[blat-software|blat]]|37x1|''module load blat/37x1''| | 
-|[[bowtie-software|bowtie1 ]]|1.2.3|''module load bowtie/1.2.3''| | +|[[bmtagger-software|bmtagger]]|0.3.102.4|''module load bmtagger/0.3.102.4''| | 
-|[[bowtie2-software|bowtie2 ]]|2.3.4.1|''module load bowtie2/2.3.4.1''| |+|[[bowtie-software|bowtie1]]|1.2.3|''module load bowtie/1.2.3''| | 
 +|[[bowtie2-software|bowtie2]]|2.5.0|''module load bowtie2/2.5.0''| |
 |[[brig-software|brig]]|0.95|''module load brig/0.95''| | |[[brig-software|brig]]|0.95|''module load brig/0.95''| |
-|[[busco-software|BUSCO ]]|4.0.6|''module load BUSCO/4.0.6''| |+|[[busco-software|BUSCO ]]|5.2.2|''module load BUSCO/5.2.2''| |
 |[[bwa-software|bwa]]|0.7.17|''module load bwa/0.7.17''| | |[[bwa-software|bwa]]|0.7.17|''module load bwa/0.7.17''| |
 |[[cafe-software|cafe]]|4.1|''module load cafe/4.1''| | |[[cafe-software|cafe]]|4.1|''module load cafe/4.1''| |
Line 51: Line 58:
 |[[canu-software|canu]]|1.8|''module load canu/1.8''| | |[[canu-software|canu]]|1.8|''module load canu/1.8''| |
 |cap3|latest|''module load cap3/latest''| | |cap3|latest|''module load cap3/latest''| |
 +|[[ccmetagen-software|ccmetagen]]|1.4.0|''module load ccmetagen/1.4.0''| |
 |[[cd-hit-software|cd-hit]]|4.8.1|''module load cd-hit/4.8.1''| | |[[cd-hit-software|cd-hit]]|4.8.1|''module load cd-hit/4.8.1''| |
 |[[cegma-software|cegma]]|v2.5|''module load cegma/v2.5''| | |[[cegma-software|cegma]]|v2.5|''module load cegma/v2.5''| |
 +|[[cgmlst-dists-software|cgmlst-dists]]|0.4.0|''module load cgmlst-dists/0.4.0''| |
 |celera-wgs|6.1|''module load celera-wgs/6.1''| | |celera-wgs|6.1|''module load celera-wgs/6.1''| |
 |censor|4.2.28|''module load censor/4.2.28''| | |censor|4.2.28|''module load censor/4.2.28''| |
-|[[changeo-software|changeo]]|1.0.0|''module load changeo/1.0.0''| |+|[[centrifuge-software|centrifuge]]|1.0.4|''module load centrifuge/1.0.4''| | 
 +|[[changeo-software|changeo]]|1.2.0|''module load changeo/1.2.0''| |
 |[[checkm-software|checkm]]|1.1.2|''module load checkm/1.1.2''| | |[[checkm-software|checkm]]|1.1.2|''module load checkm/1.1.2''| |
 +|[[chewbbaca-software|chewbbaca]]|git-87102063|''module load chewbbaca/git-87102063''| |
 |[[circos-software|circos]]|0.69-9|''module load circos/0.69-9''| | |[[circos-software|circos]]|0.69-9|''module load circos/0.69-9''| |
 |[[clonalframe-software|clonalframe]]|1.2|''module load clonalframe/1.2''| | |[[clonalframe-software|clonalframe]]|1.2|''module load clonalframe/1.2''| |
 |[[clonalframeml-software|clonalframeml]]|1.0|''module load clonalframeml/1.0''| | |[[clonalframeml-software|clonalframeml]]|1.0|''module load clonalframeml/1.0''| |
-|[[clustalo-software|clustalo]]|1.2.3|''module load clustalo/1.2.3''| | 
 |clustalw|2.1|''module load clustalw/2.1''| | |clustalw|2.1|''module load clustalw/2.1''| |
 |[[cnvnator-software|CNVnator]]|0.3.3|''module load CNVnator/0.3.3''| | |[[cnvnator-software|CNVnator]]|0.3.3|''module load CNVnator/0.3.3''| |
Line 68: Line 78:
 |[[corset-software|corset]]|1.06|''module load corset/1.06''| | |[[corset-software|corset]]|1.06|''module load corset/1.06''| |
 |cufflinks|2.2.1|''module load cufflinks/2.2.1''| | |cufflinks|2.2.1|''module load cufflinks/2.2.1''| |
-|[[cutadapt-software|cutadapt]]|1.18|''module load cutadapt/1.18''| |+|[[cutadapt-software|cutadapt]]|3.5|''module load cutadapt/3.5''| | 
 +|[[czid-cli-software|czid-cli]]|3.0.2|''module load czid-cli/3.0.2''| |
 |[[dextractor-software|dextractor]]|git-a7f50c52|''module load dextractor/git-a7f50c52''| | |[[dextractor-software|dextractor]]|git-a7f50c52|''module load dextractor/git-a7f50c52''| |
 |dendroscope|2.7.4|''module load dendroscope/2.7.4''| | |dendroscope|2.7.4|''module load dendroscope/2.7.4''| |
-|[[diamond-software|diamond]]|0.9.9|''module load diamond/0.9.9''| |+|[[diamond-software|diamond]]|2.0.14|''module load diamond/2.0.14''| | 
 +|[[disty-software|disty]]|0.1.0|''module load disty/0.1.0''| | 
 +|[[dorado-software|dorado]]|0.5.0|''module load dorado/0.5.0''| |
 |[[drep-software|drep]]|2.5.4|''module load drep/2.5.4''| | |[[drep-software|drep]]|2.5.4|''module load drep/2.5.4''| |
 |[[ea-utils-software|ea-utils]]|1.04.807|''module load ea-utils/1.04.807''| | |[[ea-utils-software|ea-utils]]|1.04.807|''module load ea-utils/1.04.807''| |
 +|[[eagle-software|eagle]]|2.4.1|''module load eagle/2.4.1''| |
 |[[edirect-software|edirect]]| 7.80 | ''module load edirect/7.80'' | | |[[edirect-software|edirect]]| 7.80 | ''module load edirect/7.80'' | |
 +|[[eggnog-mapper-software|eggnog-mapper]]| 2.1.9 | ''module load eggnog-mapper/2.1.9'' | |
 |eigenstrat|3.0|''module load eigenstrat/3.0''| | |eigenstrat|3.0|''module load eigenstrat/3.0''| |
 +|[[emblmygff3-software|emblmygff3]]|2.1|''module load emblmygff3/2.1''| |
 |[[emboss-software|emboss]]|6.6.0|''module load emboss/6.6.0''| | |[[emboss-software|emboss]]|6.6.0|''module load emboss/6.6.0''| |
 |[[easer-software|easer]]|1.7.0|''module load easer/1.7.0''| | |[[easer-software|easer]]|1.7.0|''module load easer/1.7.0''| |
Line 81: Line 97:
 |[[exabayes-software|exabayes]]|1.4.1|''module load exabayes/1.4.1''| | |[[exabayes-software|exabayes]]|1.4.1|''module load exabayes/1.4.1''| |
 |[[express-software|express]]|1.5.1|''module load express/1.5.1''| | |[[express-software|express]]|1.5.1|''module load express/1.5.1''| |
 +|[[falco-software|falco]]|0.3.0|''module load falco/0.3.0''| |
 |[[falcon-phase-software|falcon-phase]]|git-7c50154e|''module load falcon-phase/git-7c50154e''| | |[[falcon-phase-software|falcon-phase]]|git-7c50154e|''module load falcon-phase/git-7c50154e''| |
 |[[fastANI-software|fastANI]]|1.3|''module load fastANI/1.3''| | |[[fastANI-software|fastANI]]|1.3|''module load fastANI/1.3''| |
 +|[[fastp-software|fastp]]|0.22.0|''module load fastp/0.22.0''| |
 |[[fastPHASE-software|fastPHASE]]|1.4.8|''module load fastPHASE/1.4.8''| | |[[fastPHASE-software|fastPHASE]]|1.4.8|''module load fastPHASE/1.4.8''| |
-|[[fastqc-software|fastqc]]|0.11.7|''module load fastqc/0.11.7''| |+|[[fastqc-software|fastqc]]|0.11.9|''module load fastqc/0.11.9''| |
 |[[faststructure-software|fastSTRUCTURE]]|1.0|''module load fastSTRUCTURE/1.0''| | |[[faststructure-software|fastSTRUCTURE]]|1.0|''module load fastSTRUCTURE/1.0''| |
 |[[fasttree-software|fasttree]]|2.1.11|''module load fasttree/2.1.11''| | |[[fasttree-software|fasttree]]|2.1.11|''module load fasttree/2.1.11''| |
 |[[fastx-toolkit-software|fastx_toolkit]]|0.0.13|''module load fastx_toolkit/0.0.13''| | |[[fastx-toolkit-software|fastx_toolkit]]|0.0.13|''module load fastx_toolkit/0.0.13''| |
 +|[[figaro-software|figaro]]|git-337aa9|''module load figaro/git-337aa9''| |
 |figtree|1.4.0|''module load figtree/1.4.0''| | |figtree|1.4.0|''module load figtree/1.4.0''| |
 |[[flapjack-software|flapjack ]]|1.18.04.23-beta|''module load flapjack/1.18.04.23-beta''| | |[[flapjack-software|flapjack ]]|1.18.04.23-beta|''module load flapjack/1.18.04.23-beta''| |
Line 94: Line 113:
 |[[flexbar-software|flexbar]]|2.7.0|''module load flexbar/2.7.8''| | |[[flexbar-software|flexbar]]|2.7.0|''module load flexbar/2.7.8''| |
 |[[flux-capacitor-software|flux-capacitor]]|1.6.1|''module load flux-capacitor/1.6.1''| | |[[flux-capacitor-software|flux-capacitor]]|1.6.1|''module load flux-capacitor/1.6.1''| |
-|[[flye-software|flye]]|2.8.1|''module load flye/2.8.1''| |+|[[flye-software|flye]]|2.9|''module load flye/2.9''| |
 |frappe|1.1|''module load frappe/1.1''| | |frappe|1.1|''module load frappe/1.1''| |
 |[[fraggenescan-software|FragGeneScan ]]|1.30|''module load fraggenescan/1.30''| | |[[fraggenescan-software|FragGeneScan ]]|1.30|''module load fraggenescan/1.30''| |
-|[[freebayes-software|FreeBayes ]]|1.0.2|''module load freebayes/1.0.2''| |+|[[freebayes-software|freebayes]]|1.3.4|''module load freebayes/1.3.4''| | 
 +|[[funannotate-software|funannotate]]|1.8.15|See software page| |
 |[[gassflow-software|GassFlow ]]|1.0|''module load gassflow/1.0''| | |[[gassflow-software|GassFlow ]]|1.0|''module load gassflow/1.0''| |
-|[[gatk-software|GATK ]]|4.0.10.1|''module load gatk/4.0.10.1''| |+|[[gatk-software|gatk]]|4.4.0.0|''module load gatk/4.4.0.0''| |
 |[[gapfiller-software|gapfiller]]|1.10|''module load gapfiller/1.10''| | |[[gapfiller-software|gapfiller]]|1.10|''module load gapfiller/1.10''| |
 |[[geneid-software|geneid]]|1.4.4|''module load geneid/1.4.4''| | |[[geneid-software|geneid]]|1.4.4|''module load geneid/1.4.4''| |
 |[[genometools-software|genometools]]|1.6.1|''module load genometools/1.6.1''| | |[[genometools-software|genometools]]|1.6.1|''module load genometools/1.6.1''| |
 +|[[genomeworks-software|genomeworks]]|git-baab5668|''module load genomeworks/git-baab5668''| |
 |[[genscan-software|genscan]]|latest|''module load genscan/latest''| | |[[genscan-software|genscan]]|latest|''module load genscan/latest''| |
 |[[gffread-software|gffread]]|0.9.6|''module load gffread/0.9.6''| | |[[gffread-software|gffread]]|0.9.6|''module load gffread/0.9.6''| |
Line 108: Line 129:
 |glu|1.0b3-prerelease4|''module load glu/1.0b3-prerelease4''| | |glu|1.0b3-prerelease4|''module load glu/1.0b3-prerelease4''| |
 |[[gmap-software|gmap]]|2015-12-31|''module load gmap/2015-12-31''| | |[[gmap-software|gmap]]|2015-12-31|''module load gmap/2015-12-31''| |
 +|[[graphlan-software|graphlan]]|1.1.3|''module load graphlan/1.1.3''| |
 |[[graphmap-software|graphmap]]|0.5.2|''module load graphmap/0.5.2''| | |[[graphmap-software|graphmap]]|0.5.2|''module load graphmap/0.5.2''| |
 |[[grom-rd-software|grom-rd]]|1.0|''module load grom-rd/1.0''| | |[[grom-rd-software|grom-rd]]|1.0|''module load grom-rd/1.0''| |
Line 115: Line 137:
 |[[gtdbtk-software|gtdbtk]]|1.1.1|''module load gtdbtk/1.1.1''| | |[[gtdbtk-software|gtdbtk]]|1.1.1|''module load gtdbtk/1.1.1''| |
 |[[guidance-software|guidance]]|2.02|''module load guidance/2.02''| | |[[guidance-software|guidance]]|2.02|''module load guidance/2.02''| |
 +|[[guppy-software|guppy]]|6.2.1|''module load guppy/6.2.1''| |
 +|[[halcyon-software|halcyon]]|0.1.1|''module load halcyon/0.1.1''| |
 |[[hapflk-software|hapflk]]|1.4|''module load hapflk/1.4''| | |[[hapflk-software|hapflk]]|1.4|''module load hapflk/1.4''| |
 |hapmix|2.0|''module load hapmix/2.0''| | |hapmix|2.0|''module load hapmix/2.0''| |
 +|[[hawk-software|hawk]]|git-a177811d|''module load hawk/git-a177811d''| |
 +|[[hclust2-software|hclust2]]|1.0.0|''module load hclust2/1.0.0''| |
 |[[hdf5-software|hdf5]]|1.8.19|''module load hdf5/1.8.19''| | |[[hdf5-software|hdf5]]|1.8.19|''module load hdf5/1.8.19''| |
 |[[hmmer-software|hmmer]]|3.3|''module load hmmer/3.3''| | |[[hmmer-software|hmmer]]|3.3|''module load hmmer/3.3''| |
Line 122: Line 148:
 |[[hpg-variant-software|hpg-variant]]|1.0|''module load hpg-variant/1.0''| | |[[hpg-variant-software|hpg-variant]]|1.0|''module load hpg-variant/1.0''| |
 |[[hic_qc-software|hic_qc]]|git-1e132fb2|''module load hic_qc/git-1e132fb2''| | |[[hic_qc-software|hic_qc]]|git-1e132fb2|''module load hic_qc/git-1e132fb2''| |
 +|[[hifiasm-software|hifiasm]]|0.16.1|''module load hifiasm/0.16.1''| |
 |[[hisat2-software|hisat2]]|2.1.0|''module load hisat2/2.1.0''| | |[[hisat2-software|hisat2]]|2.1.0|''module load hisat2/2.1.0''| |
 |[[htseq-software|htseq]]|0.9.1|''module load htseq/0.9.1''| | |[[htseq-software|htseq]]|0.9.1|''module load htseq/0.9.1''| |
-|[[htslib-software|htslib]]|1.11|''module load htslib/1.11''| |+|[[htslib-software|htslib]]|1.15.1|''module load htslib/1.15.1''| |
 |[[hypo-software|hypo]]|1.0.3|''module load hypo/1.0.3''| | |[[hypo-software|hypo]]|1.0.3|''module load hypo/1.0.3''| |
 +|[[hyphy-software|hyphy]]|2.5.48|''module load hyphy/2.5.48''| |
 |[[idba-software|idba]]|1.1.2|''module load idba/1.1.2''| | |[[idba-software|idba]]|1.1.2|''module load idba/1.1.2''| |
 |[[igblast-software|igblast]]|1.10.0|''module load igblast/1.10.0''| | |[[igblast-software|igblast]]|1.10.0|''module load igblast/1.10.0''| |
Line 131: Line 159:
 |[[igrec-software|igrec]]|3.0.0|''module load igrec/3.0.0''| | |[[igrec-software|igrec]]|3.0.0|''module load igrec/3.0.0''| |
 |[[igsimulator-software|igsimulator]]|git-c3778b74|''module load igsimulator/git-c3778b74''| | |[[igsimulator-software|igsimulator]]|git-c3778b74|''module load igsimulator/git-c3778b74''| |
-|[[iqtree-software|iqtree]]|1.6.12|''module load iqtree/1.6.12''| |+|[[iqtree-software|iqtree]]|2.2.0|''module load iqtree/2.2.0''| |
 |[[igv-software|igv]]|2.4.5|''module load igv/2.4.5''| | |[[igv-software|igv]]|2.4.5|''module load igv/2.4.5''| |
 |[[igvtools-software|igvtools]]|2.3.98|''module load igvtools/2.3.98''| | |[[igvtools-software|igvtools]]|2.3.98|''module load igvtools/2.3.98''| |
 |[[infernal-software|infernal]]|1.1.2|''module load infernal/1.1.2''| | |[[infernal-software|infernal]]|1.1.2|''module load infernal/1.1.2''| |
 +|[[integron-finder-software|integron-finder]]|2.0.2|''module load integron-finder/2.0.2''| |
 |[[interproscan-software|interproscan]]|5.13|''module load interproscan/5.13''| | |[[interproscan-software|interproscan]]|5.13|''module load interproscan/5.13''| |
 |i-tasser|latest|''module load i-tasser/latest''| | |i-tasser|latest|''module load i-tasser/latest''| |
-|[[ivar-software|ivar]]|1.3|''module load ivar/1.3''| |+|[[ivar-software|ivar]]|1.3.1|''module load ivar/1.3.1''| |
 |[[jellyfish-software|jellyfish]]|2.3.0|''module load jellyfish/2.3.0''| | |[[jellyfish-software|jellyfish]]|2.3.0|''module load jellyfish/2.3.0''| |
 |jMHC|1.5.0929|''module load jMHC/1.5.0929''| | |jMHC|1.5.0929|''module load jMHC/1.5.0929''| |
 |[[juicebox-software|juicebox]]|1.11.08|''module load juicebox/1.11.08''| | |[[juicebox-software|juicebox]]|1.11.08|''module load juicebox/1.11.08''| |
 |[[juicer-software|juicer]]|1.6|''module load juicer/1.6''| | |[[juicer-software|juicer]]|1.6|''module load juicer/1.6''| |
-|[[kaiju-software|kaiju]]|1.4.4|''module load kaiju/1.4.4''| |+|[[kaiju-software|kaiju]]|1.8.2|''module load kaiju/1.8.2''| |
 |[[kallisto-software|kallisto]]|0.43.0|''module load kallisto/0.43.0''| | |[[kallisto-software|kallisto]]|0.43.0|''module load kallisto/0.43.0''| |
 |[[karect-software|karect]]|1.0|''module load karect/1.0''| | |[[karect-software|karect]]|1.0|''module load karect/1.0''| |
 |[[kat-software|kat]]|2.3.4|''module load kat/2.3.4''| | |[[kat-software|kat]]|2.3.4|''module load kat/2.3.4''| |
 +|[[kma-software|kma]]|1.4.11|''module load kma/1.4.11''| |
 |[[kmc-software|kmc]]|3.1.1|''module load kmc/3.1.1''| | |[[kmc-software|kmc]]|3.1.1|''module load kmc/3.1.1''| |
 +|[[kmerfreq-software|kmerfreq]]|git-90fca00d|''module load kmerfreq/git-90fca00d''| |
 |[[kmergenie-software|kmergenie]]|1.7038|''module load kmergenie/1.7038''| | |[[kmergenie-software|kmergenie]]|1.7038|''module load kmergenie/1.7038''| |
 |[[kmer-ssr-software|kmer-ssr]]|git-4043c0e7|''module load kmer-ssr/git-4043c0e7''| | |[[kmer-ssr-software|kmer-ssr]]|git-4043c0e7|''module load kmer-ssr/git-4043c0e7''| |
-|[[kraken-software|kraken]]|2.0.8-beta|''module load kraken/2.0.8-beta''| | +|[[kraken-software|kraken]]|2.1.2|''module load kraken/2.1.2''| | 
-|krona|2.4|''module load krona/2.4''| |+|[[krona-software|krona]]|2.8.1|''module load krona/2.8.1''| |
 |lamp|2.5|''module load lamp/2.5''| | |lamp|2.5|''module load lamp/2.5''| |
 |lava|0.1|''module load lava/0.1''| | |lava|0.1|''module load lava/0.1''| |
Line 156: Line 187:
 |[[libsvm-software|libsvm]]|3.20|''module load libsvm/3.20''| | |[[libsvm-software|libsvm]]|3.20|''module load libsvm/3.20''| |
 |[[lighter-software|lighter]]|1.1.2|''module load lighter/1.1.2''| | |[[lighter-software|lighter]]|1.1.2|''module load lighter/1.1.2''| |
 +|[[longshot-software|longshot]]|0.4.5|''module load longshot/0.4.5''| |
 |[[lordec-software|lordec]]|0.9|''module load lordec/0.9''| | |[[lordec-software|lordec]]|0.9|''module load lordec/0.9''| |
 +|[[ltr_retriever-software|ltr_retriever]]|2.9.0|''module load ltr_retriever/2.9.0''| |
 |lucy|1.19p|''module load lucy/1.19p''| | |lucy|1.19p|''module load lucy/1.19p''| |
-|[[mafft-software|mafft]]|7.475|''module load mafft/7.475''| |+|[[mafft-software|mafft]]|7.505|''module load mafft/7.505''| |
 |[[maker-software|maker]]|3.01.03|''module load maker/3.01.03''| | |[[maker-software|maker]]|3.01.03|''module load maker/3.01.03''| |
 |[[mapsplice-software|mapsplice]]|2.2.0|''module load mapsplice/2.2.0''| | |[[mapsplice-software|mapsplice]]|2.2.0|''module load mapsplice/2.2.0''| |
Line 164: Line 197:
 |[[marginpolish-software|marginpolish]]|1.0.0|''module load marginpolish/1.0.0''| | |[[marginpolish-software|marginpolish]]|1.0.0|''module load marginpolish/1.0.0''| |
 |[[mash-software|mash]]|2.2|''module load mash/2.2''| | |[[mash-software|mash]]|2.2|''module load mash/2.2''| |
-|[[masurca-software|masurca]]|3.3.1|''module load masurca/3.3.1''| |+|[[masurca-software|masurca]]|4.1.0|''module load masurca/4.1.0''| |
 |mauve|2.3.1|''module load mauve/2.3.1''| | |mauve|2.3.1|''module load mauve/2.3.1''| |
 |[[maxbin2-software|maxbin2]]|2.2.7|''module load maxbin2/2.2.7''| | |[[maxbin2-software|maxbin2]]|2.2.7|''module load maxbin2/2.2.7''| |
 |maximus|0.2|''module load maximus/0.2''| | |maximus|0.2|''module load maximus/0.2''| |
 |[[mcl-software|mcl]]|14-137|''module load mcl/14-137''| | |[[mcl-software|mcl]]|14-137|''module load mcl/14-137''| |
 +|[[mcscanx-software|mcscanx]]|git-97e74f40|''module load mcscanx/git-97e74f40''| |
 |[[mecat-software|MECAT]]|git-d04bfa84|''module load MECAT/git-d04bfa84''| | |[[mecat-software|MECAT]]|git-d04bfa84|''module load MECAT/git-d04bfa84''| |
-|[[medaka-software|medaka]]|0.8.2|''module load medaka/0.8.2''| | +|[[medaka-software|medaka]]|1.4.3|''module load medaka/1.4.3''| | 
-|[[megahit-software|megahit]]|1.1.4|''module load megahit/1.1.4''| |+|[[megahit-software|megahit]]|1.2.9|''module load megahit/1.2.9''| |
 |megan|4.70.4|''module load megan/4.70.4''| | |megan|4.70.4|''module load megan/4.70.4''| |
 |[[megax-software|megax]]|10.0.5|''module load megax/10.0.5''| | |[[megax-software|megax]]|10.0.5|''module load megax/10.0.5''| |
 |[[metabat-software|metabat]]|2.12.1|''module load metabat/2.12.1''| | |[[metabat-software|metabat]]|2.12.1|''module load metabat/2.12.1''| |
-|[[metaphlan2-software|metaphlan2]]|2.9.5|''module load metaphlan2/2.9.5''| |+|[[metaeuk-software|metaeuk]]|git-9818d1a5|''module load metaeuk/git-9818d1a5''| | 
 +|[[metaphlan-software|metaphlan]]|4.0.6|''module load metaphlan/4.0.6''| |
 |[[metis-software|metis]]|5.1.0|''module load metis/5.1.0''| | |[[metis-software|metis]]|5.1.0|''module load metis/5.1.0''| |
 |[[migec-software|migec]]|1.2.4a|''module load migec/1.2.4a''| | |[[migec-software|migec]]|1.2.4a|''module load migec/1.2.4a''| |
 |[[migmap-software|migmap]]|1.0.2|''module load migmap/1.0.2''| | |[[migmap-software|migmap]]|1.0.2|''module load migmap/1.0.2''| |
 |[[miniasm-software|miniasm]]|0.3|''module load miniasm/0.3''| | |[[miniasm-software|miniasm]]|0.3|''module load miniasm/0.3''| |
-|[[minimap2-software|minimap2]]|2.13|''module load minimap2/2.13''| |+|[[minimac3-software|minimac3]]|2.0.1|''module load minimac3/2.0.1''| | 
 +|[[minimac4-software|minimac4]]|1.0.3|''module load minimac4/1.0.3''| | 
 +|[[minimap2-software|minimap2]]|2.24|''module load minimap2/2.24''| |
 |[[minpath-software|MinPath]]|1.0.2|''module load MinPath/1.2''| | |[[minpath-software|MinPath]]|1.0.2|''module load MinPath/1.2''| |
 |[[mira-software#v4.0.2|mira]]|4.0.2|''module load mira/4.0.2''| | |[[mira-software#v4.0.2|mira]]|4.0.2|''module load mira/4.0.2''| |
Line 192: Line 229:
 |[[mothur-krona-software|mothur-krona]]|git-87499a0|''module load mothur-krona/git-87499a0''| | |[[mothur-krona-software|mothur-krona]]|git-87499a0|''module load mothur-krona/git-87499a0''| |
 |mpiblast|1.6.0|''module load mpiblast/1.6.0''| | |mpiblast|1.6.0|''module load mpiblast/1.6.0''| |
-|mrbayes|3.2.2|''module load mrbayes/3.2.2''| | +|[[mrbayes-software|mrbayes]]|3.2.7a|''module load mrbayes/3.2.7a''| | 
-|[[multiqc-software|multiqc]]|1.6|''module load multiqc/1.6''| |+|[[multiqc-software|multiqc]]|1.12|''module load multiqc/1.12''| |
 |[[muscle-software|muscle]]|3.8.1551|''module load muscle/3.8.1551'' | |[[muscle-software|muscle]]|3.8.1551|''module load muscle/3.8.1551'' |
 |[[mummer-software|mummer]]|4.0.0rc1|''module load mummer/4.0.0rc1''| | |[[mummer-software|mummer]]|4.0.0rc1|''module load mummer/4.0.0rc1''| |
-|[[nanopolish-software|nanopolish]]|0.10.2|''module load nanopolish/0.10.2''| |+|[[nanopolish-software|nanopolish]]|0.14.0|''module load nanopolish/0.14.0''| | 
 +|[[nanoqc-software|nanoqc]]|git-a7bcbdce|''module load nanoqc/git-a7bcbdce''| |
 |[[netmhcpan-software|netmhcpan]]|2.8|''module load netmhcpan/2.8''| | |[[netmhcpan-software|netmhcpan]]|2.8|''module load netmhcpan/2.8''| |
-|[[nextalign-software|nextalign]]|0.1.7|''module load nextalign/0.1.7''| | +|[[nextalign-software|nextalign]]|1.11.0|''module load nextalign/1.11.0''| | 
-|[[nextclade-software|nextclade]]|0.12.0|''module load nextclade/0.12.0''| |+|[[nextclade-software|nextclade]]|2.11.0|''module load nextclade/2.11.0''| |
 |[[nextclip-software|nextclip]]|1.3.1|''module load nextclip/1.3.1''| | |[[nextclip-software|nextclip]]|1.3.1|''module load nextclip/1.3.1''| |
-|[[nextflow-software|nextflow]]|20.10.0|''module load nextflow/20.10.0''| |+|[[nextflow-software|nextflow]]|23.10 (23.10.0)|''module load nextflow/23.10''| | 
 +|[[ngs-tools-software|ngs-tools]]|3.0.0|''module load ngs-tools/3.0.0''| |
 |[[ntcard-software|ntCard]]|1.0.0|''module load ntCard/1.0.0''| | |[[ntcard-software|ntCard]]|1.0.0|''module load ntCard/1.0.0''| |
 |[[ngmlr-software|ngmlr]]|0.2.7|''module load ngmlr/0.2.7''| | |[[ngmlr-software|ngmlr]]|0.2.7|''module load ngmlr/0.2.7''| |
Line 209: Line 248:
 |[[oases-software|oases]]|0.2.08|''module load oases/0.2.08''| | |[[oases-software|oases]]|0.2.08|''module load oases/0.2.08''| |
 |[[ocaml-software#v4.02.1|ocaml]]|4.02.1|''module load ocaml/4.02.1''| | |[[ocaml-software#v4.02.1|ocaml]]|4.02.1|''module load ocaml/4.02.1''| |
 +|[[oligoarrayaux-software|oligoarrayaux]]|3.8.1|''module load oligoarrayaux/3.8.1''| |
 |[[opam-software#v1.2.0|opam]]|1.2.0|''module load opam/1.2.0''| | |[[opam-software#v1.2.0|opam]]|1.2.0|''module load opam/1.2.0''| |
 |orthomcl|2.0.3|''module load orthomcl/2.0.3''| | |orthomcl|2.0.3|''module load orthomcl/2.0.3''| |
Line 215: Line 255:
 |[[pairfq-software|pairfq]]|0.14.4|''module load pairfq/0.14.4''| | |[[pairfq-software|pairfq]]|0.14.4|''module load pairfq/0.14.4''| |
 |[[paml-software|paml]]|4.9a|''module load paml/4.9a''| | |[[paml-software|paml]]|4.9a|''module load paml/4.9a''| |
 +|[[panaroo-software|panaroo]]|1.3.3|''module load panaroo/1.3.3''| |
 |[[pandaseq-software|pandaseq]]|2.8.1|''module load pandaseq/2.8.1'' | |[[pandaseq-software|pandaseq]]|2.8.1|''module load pandaseq/2.8.1'' |
 |[[pasta-software|pasta]]|d939adb2|''module load pasta/d939adb2'' | |[[pasta-software|pasta]]|d939adb2|''module load pasta/d939adb2'' |
 +|[[pathoscope-software|pathoscope]]|2.0.7|''module load pathoscope/2.0.7''| |
 |[[pear-software|pear]]|0.9.6|''module load pear/0.9.6''| | |[[pear-software|pear]]|0.9.6|''module load pear/0.9.6''| |
 |[[pblat-software|pblat]]|2.1|''module load pblat/2.1''| | |[[pblat-software|pblat]]|2.1|''module load pblat/2.1''| |
Line 226: Line 268:
 |[[phylip-software|phylip]]|3.696|''module load phylip/3.696''| | |[[phylip-software|phylip]]|3.696|''module load phylip/3.696''| |
 |[[phyml-software|phyml]]|3.3.20180621|''module load phyml/3.3.20180621''| | |[[phyml-software|phyml]]|3.3.20180621|''module load phyml/3.3.20180621''| |
-|[[picard-software|picard]]|2.25.5| see documentation | |+|[[picard-software|picard]]|2.27.5|''module load picard/2.27.5''| |
 |[[picrust-software#v1.0.0|picrust]]|1.0.0|''module load picrust/1.0.0''| | |[[picrust-software#v1.0.0|picrust]]|1.0.0|''module load picrust/1.0.0''| |
 |[[pilon-software|pilon]]|1.23|''module load pilon/1.23''| | |[[pilon-software|pilon]]|1.23|''module load pilon/1.23''| |
-|[[plasmidid-software|plasmidid]]|1.6.3|''module load plasmidid/1.6.3''| |+|[[plasmidid-software|plasmidid]]|1.6.5|''module load plasmidid/1.6.5''| |
 |[[platanus-software|platanus]]|1.2.1|''module load platanus/1.2.1''| | |[[platanus-software|platanus]]|1.2.1|''module load platanus/1.2.1''| |
 |[[plink-software|plink]]|2.00-alpha|''module load plink/2.00-alpha''| | |[[plink-software|plink]]|2.00-alpha|''module load plink/2.00-alpha''| |
 +|[[pod5-software|pod5]]|0.3.2|''module load pod5/0.3.2''| |
 |[[polyphen-software|polyphen]]|2.2.2|''module load polyphen/2.2.2''| | |[[polyphen-software|polyphen]]|2.2.2|''module load polyphen/2.2.2''| |
-|[[porechop-software|porechop]]|0.2.4|''module load porechop/0.2.4''| |+|[[poplddecay-software|poplddecay]]|3.41|''module load poplddecay/3.41''| | 
 +|[[porechop-software|porechop]]|0.3.2pre|''module load porechop/0.3.2pre''| |
 |[[pplacer-software|pplacer]]|1.1.alpha19|''module load pplacer/1.1.alpha19''| | |[[pplacer-software|pplacer]]|1.1.alpha19|''module load pplacer/1.1.alpha19''| |
 |[[prank-software|prank]]|170427|''module load prank/170427''| | |[[prank-software|prank]]|170427|''module load prank/170427''| |
 |[[presto-software|presto]]|0.5.13|''module load presto/0.5.13''| | |[[presto-software|presto]]|0.5.13|''module load presto/0.5.13''| |
 +|[[primalscheme-software|primalscheme]]|1.3.2|''module load primalscheme/1.3.2''| |
 |primer3|2.3.6|''module load primer3/2.3.6''| | |primer3|2.3.6|''module load primer3/2.3.6''| |
 |[[prinseq-software|prinseq]]|0.20.4|''module load prinseq/0.20.4''| | |[[prinseq-software|prinseq]]|0.20.4|''module load prinseq/0.20.4''| |
Line 242: Line 287:
 |[[prokka-software|prokka]]|1.14.6|''module load prokka/1.14.6''| | |[[prokka-software|prokka]]|1.14.6|''module load prokka/1.14.6''| |
 |[[provean-software|provean]]|1.1.5|''module load provean/1.1.5''| | |[[provean-software|provean]]|1.1.5|''module load provean/1.1.5''| |
-|[[python-software|python]]|3.7.10|''module load python/3.7''| |+|[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|''module load purge_haplotigs/1.1.1''| | 
 +|[[python-software|python]]|3.9.17|''module load python/3.9''| |
 |qdd|3_beta|''module load qdd/3_beta''| | |qdd|3_beta|''module load qdd/3_beta''| |
 |[[qiime-software|qiime]]|1.9.1|''module load qiime/1.9.1''| | |[[qiime-software|qiime]]|1.9.1|''module load qiime/1.9.1''| |
-|[[qiime2-software|qiime2]]|2020.8|''module load qiime2/2020.8''| |+|[[qiime2-software|qiime2]]|2021.8|''module load qiime2/2021.8''| |
 |[[quast-software|quast]]|5.0.2|''module load quast/5.0.2''| | |[[quast-software|quast]]|5.0.2|''module load quast/5.0.2''| |
 |[[quickmerge-software|quickmerge]]|0.3|''module load quickmerge/0.3''| | |[[quickmerge-software|quickmerge]]|0.3|''module load quickmerge/0.3''| |
 |[[quorum-software|Quorum]]|1.1.1|''module load quorum/1.1.1''| | |[[quorum-software|Quorum]]|1.1.1|''module load quorum/1.1.1''| |
-|[[r-software|R]]|4.0.5|''module load R/4.0''| | +|[[r-software|R]]|4.3.1|''module load R/4.3''| | 
-|[[racon-software|racon]]|1.3.1|''module load racon/1.3.1''| | +|[[racon-software|racon]]|1.5.0|''module load racon/1.5.0''| |
-|[[rmblast-software|rmblast]]|2.11.0|''module load rmblast/2.11.0''| |+
 |[[rapsearch-software|rapsearch]]|2.22|''module load rapsearch/2.22''| | |[[rapsearch-software|rapsearch]]|2.22|''module load rapsearch/2.22''| |
 |[[ratt-software|RATT]]|r18|''module load ratt/r18''| | |[[ratt-software|RATT]]|r18|''module load ratt/r18''| |
 |[[raxml-software|RAxML]]|8.2.12|''module load RAxML/8.2.12''| | |[[raxml-software|RAxML]]|8.2.12|''module load RAxML/8.2.12''| |
 |[[ray-software|ray]]|2.3.1|''module load ray/2.3.1''| | |[[ray-software|ray]]|2.3.1|''module load ray/2.3.1''| |
 +|[[rcorrector-software|rcorrector]]|1.0.5|''module load rcorrector/1.0.5''| |
 |[[rdp-classifier-software|RDP Classifier]]|2.11|''module load rdp-classifier/2.11''| | |[[rdp-classifier-software|RDP Classifier]]|2.11|''module load rdp-classifier/2.11''| |
 |[[recon-software|recon]]|1.08|''module load recon/1.08''| | |[[recon-software|recon]]|1.08|''module load recon/1.08''| |
-|[[repeatmasker-software|repeatmasker]]|4.1.1|''module load repeatmasker/4.1.1''| |+|[[repeatmasker-software|repeatmasker]]|4.1.2-p1|''module load repeatmasker/4.1.2-p1''| |
 |[[repeatmodeler-software|repeatmodeler]]|2.0.1|''module load repeatmodeler/2.0.1''| | |[[repeatmodeler-software|repeatmodeler]]|2.0.1|''module load repeatmodeler/2.0.1''| |
 |[[repseqio-software|repseqio]]|1.3.3|''module load repseqio/1.3.3''| | |[[repseqio-software|repseqio]]|1.3.3|''module load repseqio/1.3.3''| |
 +|[[rgi-software|rgi]]|6.0.2|''module load rgi/6.0.2''| |
 +|[[rmblast-software|rmblast]]|2.11.0|''module load rmblast/2.11.0''| |
 +|[[roary-software|roary]]|3.13.0|''module load roary/3.13.0''| |
 |[[root-software|root]]|6.08.06|''module load root/6.08.06''| | |[[root-software|root]]|6.08.06|''module load root/6.08.06''| |
 |[[rrnaselector-software|rRNASelector]]|1.1|''module load rrnaselector/1.1''| | |[[rrnaselector-software|rRNASelector]]|1.1|''module load rrnaselector/1.1''| |
 |[[rsem-software|RSEM]]|1.3.1|''module load RSEM/1.3.1''| | |[[rsem-software|RSEM]]|1.3.1|''module load RSEM/1.3.1''| |
 |[[rseqc-software|rseqc]]|2.6.4|''module load rseqc/2.6.4''| | |[[rseqc-software|rseqc]]|2.6.4|''module load rseqc/2.6.4''| |
-|[[ruby-software|ruby]]|2.2.3|''module load ruby/2.2.3''| | +|[[ruby-software|ruby]]|3.1 (3.1.4)|''module load ruby/3.1''| | 
-|[[samtools-software|samtools]]|1.11|''module load samtools/1.11''| |+|[[samtools-software|samtools]]|1.15.1|''module load samtools/1.15.1''| |
 |[[sailfish-software|sailfish]]|0.9.2|''module load sailfish/0.9.2''| | |[[sailfish-software|sailfish]]|0.9.2|''module load sailfish/0.9.2''| |
 |[[salmon-software|salmon]]|1.3.0|''module load salmon/1.3.0''| | |[[salmon-software|salmon]]|1.3.0|''module load salmon/1.3.0''| |
 |[[salsa-software|salsa]]|git-974589f3|''module load salsa/git-974589f3''| | |[[salsa-software|salsa]]|git-974589f3|''module load salsa/git-974589f3''| |
 +|[[satsuma2-software|satsuma2]]|git-37c5f386|''module load satsuma2/git-37c5f386''| |
 |[[scipio-software|scipio]]|1.4.1|''module load scipio/1.4.1''| | |[[scipio-software|scipio]]|1.4.1|''module load scipio/1.4.1''| |
 |[[scythe-software|scythe]]|0.994-beta|''module load scythe/0.994-beta''| | |[[scythe-software|scythe]]|0.994-beta|''module load scythe/0.994-beta''| |
-|[[sepp-software|sepp]]|4.3.8|''module load sepp/4.3.8''| |+|[[sepp-software|sepp]]|4.5.1|''module load sepp/4.5.1''| |
 |[[seroba-software|seroba]]|1.0.0|''module load seroba/1.0.0''| | |[[seroba-software|seroba]]|1.0.0|''module load seroba/1.0.0''| |
 |seq_crumbs|0.1.8|''module load seq_crumbs/0.1.8''| | |seq_crumbs|0.1.8|''module load seq_crumbs/0.1.8''| |
Line 280: Line 330:
 |[[seqwish-software|seqwish]]|0.6|''module load seqwish/0.6''| | |[[seqwish-software|seqwish]]|0.6|''module load seqwish/0.6''| |
 |[[shannon-software|shannon]]|0.0.2|''module load shannon/0.0.2''| | |[[shannon-software|shannon]]|0.0.2|''module load shannon/0.0.2''| |
 +|[[shannon_cpp-software|shannon_cpp]]|0.5.0|''module load shannon_cpp/0.5.0''| |
 +|[[shapeit-software|shapeit]]|2.904|''module load shapeit/2.904''| |
 |[[shasta-software|shasta]]|0.4.0|''module load shasta/0.4.0''| | |[[shasta-software|shasta]]|0.4.0|''module load shasta/0.4.0''| |
 |[[sickle-software|sickle]]|1.33|''module load sickle/1.33''| | |[[sickle-software|sickle]]|1.33|''module load sickle/1.33''| |
Line 286: Line 338:
 |[[smalt-software|smalt]]|0.7.6|''module load smalt/0.7.6''| | |[[smalt-software|smalt]]|0.7.6|''module load smalt/0.7.6''| |
 |[[smartdenovo-software|smartdenovo]]|git-5cc1356b|''module load smartdenovo/git-5cc1356b''| | |[[smartdenovo-software|smartdenovo]]|git-5cc1356b|''module load smartdenovo/git-5cc1356b''| |
-|[[snakemake-software|snakemake]]|5.7.0|''module load snakemake/5.7.0''| |+|[[snakemake-software|snakemake]]|6.15.5|''module load snakemake/6.15''| |
 |[[sniffles-software|sniffles]]|1.0.12b|''module load sniffles/1.0.12b''| | |[[sniffles-software|sniffles]]|1.0.12b|''module load sniffles/1.0.12b''| |
 +|[[snippy-software|snippy]]|4.6.0|''module load snippy/4.6.0''| |
 |snowhite|1.1.4|''module load snowhite/1.1.4''| | |snowhite|1.1.4|''module load snowhite/1.1.4''| |
-|[[snpeff-software|SnpEff & SnpSift]]|4.1g|''module load snpeff/4.1g''| |+|[[snpeff-software|snpeff]]|5.1|''module load snpeff/5.1''| |
 |[[snpmeta-software|snpmeta]]|2.0|''module load snpmeta/2.0''| | |[[snpmeta-software|snpmeta]]|2.0|''module load snpmeta/2.0''| |
 |[[snp-pipeline-software|snp-pipeline]]|1.0.1|''module load snp-pipeline/1.0.1''| | |[[snp-pipeline-software|snp-pipeline]]|1.0.1|''module load snp-pipeline/1.0.1''| |
Line 298: Line 351:
 |[[soapdenovo-trans-software|SOAPdenovo-Trans]]|1.03|''module load SOAPdenovo-Trans/1.03''| | |[[soapdenovo-trans-software|SOAPdenovo-Trans]]|1.03|''module load SOAPdenovo-Trans/1.03''| |
 |[[solexaqa-software|SolexaQA++]]|3.1.3|''module load SolexaQA++/3.1.3''| | |[[solexaqa-software|SolexaQA++]]|3.1.3|''module load SolexaQA++/3.1.3''| |
-|[[spades-software|spades]]|3.13.0|''module load spades/3.13.0''| |+|[[spades-software|spades]]|3.15 (3.15.5)|''module load spades/3.15''| |
 |[[sourmash-software|sourmash]]|1.0|''module load sourmash/1.0''| | |[[sourmash-software|sourmash]]|1.0|''module load sourmash/1.0''| |
 |[[speedseq-software|speedseq]]|0.1.2|''module load speedseq/0.1.2''| | |[[speedseq-software|speedseq]]|0.1.2|''module load speedseq/0.1.2''| |
Line 305: Line 358:
 |[[squid-software|squid]]|1.9g|''module load squid/1.9g''| | |[[squid-software|squid]]|1.9g|''module load squid/1.9g''| |
 |[[sratoolkit-software|sratoolkit]]|2.10.0|''module load sratoolkit/2.10.0''| | |[[sratoolkit-software|sratoolkit]]|2.10.0|''module load sratoolkit/2.10.0''| |
 +|[[sra-tools-software|sra-tools]]|3.0.0|''module load sra-tools/3.0.0''| |
 +|[[srprism-software|srprism]]|3.1.2|''module load srprism/3.1.2''| |
 +|[[srst2-software|srst2]]|git-73f885f5|''module load srst2/git-73f885f5''| |
 |[[sspace-software|sspace]]|3.0|''module load sspace/3.0''| | |[[sspace-software|sspace]]|3.0|''module load sspace/3.0''| |
 |[[sspace-longread-software|sspace-longread]]|1.1|''module load sspace-longread/1.1''| | |[[sspace-longread-software|sspace-longread]]|1.1|''module load sspace-longread/1.1''| |
-|[[stacks-software|stacks]]|1.24|''module load stacks/1.24''| |+|[[stacks-software|stacks]]|2.62|''module load stacks/2.62''| |
 |staden|2.0.0b8|''module load staden/2.0.0b8''| | |staden|2.0.0b8|''module load staden/2.0.0b8''| |
-|[[star-software|star]]|2.7.1a|''module load star/2.7.1a''| |+|[[star-software|star]]|2.7.10a|''module load star/2.7.10a''| |
 |[[structure-software|structure]]|2.3.4|''module load structure/2.3.4'' | |[[structure-software|structure]]|2.3.4|''module load structure/2.3.4'' |
 |[[stringtie-software|stringtie]]|1.3.4d|''module load stringtie/1.3.4d''| | |[[stringtie-software|stringtie]]|1.3.4d|''module load stringtie/1.3.4d''| |
 +|[[stringtie2-software|stringtie2]]|2.2.1|''module load stringtie2/2.2.1''| |
 |[[subread-software|subread]]|1.6.2|''module load subread/1.6.2''| | |[[subread-software|subread]]|1.6.2|''module load subread/1.6.2''| |
 |svmlight|V6.02|''module load svmlight/V6.02''| | |svmlight|V6.02|''module load svmlight/V6.02''| |
 |tabix|git-76b4bbdf|''module load tabix/git-76b4bbdf''| | |tabix|git-76b4bbdf|''module load tabix/git-76b4bbdf''| |
 |[[tablet-software|tablet]]|1.17.08.17|''module load tablet/1.17.08.17''| | |[[tablet-software|tablet]]|1.17.08.17|''module load tablet/1.17.08.17''| |
-|[[tassel-software|tassel]]|4.0|''module load tassel/4.0''| |+|[[tassel-software|tassel]]|5.2.77|''module load tassel/5.2.77''| |
 |[[tmiseq-software|tmiseq]]|2016-01-31|''module load tmiseq/2016-01-31''| | |[[tmiseq-software|tmiseq]]|2016-01-31|''module load tmiseq/2016-01-31''| |
 |[[tophat-software|tophat]]|2.1.0|''module load tophat2/2.1.0''| | |[[tophat-software|tophat]]|2.1.0|''module load tophat2/2.1.0''| |
 |[[tracer-software|tracer]]|1.6|''module load tracer/1.6''| | |[[tracer-software|tracer]]|1.6|''module load tracer/1.6''| |
 +|[[transabyss-software|transabyss]]|2.0.1|''module load transabyss/2.0.1'' |
 |[[transdecoder-software|TransDecoder]]|2.0.1|''module load TransDecoder/2.0.1'' | |[[transdecoder-software|TransDecoder]]|2.0.1|''module load TransDecoder/2.0.1'' |
 |[[transrate-software|Transrate]]|1.0.3|''module load transrate/1.0.3'' | |[[transrate-software|Transrate]]|1.0.3|''module load transrate/1.0.3'' |
 |[[trf-software|trf]]|4.0.9|''module load trf/4.0.9''| | |[[trf-software|trf]]|4.0.9|''module load trf/4.0.9''| |
-|[[trimmomatic-software|trimmomatic]]|0.38|''module load trimmomatic/0.38''| |+|[[trimgalore-software|trimgalore]]|0.6.7|''module load trimgalore/0.6.7''| | 
 +|[[trimmomatic-software|trimmomatic]]|0.39|''module load trimmomatic/0.39''| |
 |[[trinity-software|trinity]]|v2.11.0|''module load trinity/v2.11.0''| | |[[trinity-software|trinity]]|v2.11.0|''module load trinity/v2.11.0''| |
 |[[trinotate-software|trinotate]]|2.0.2|''module load trinotate/2.0.2''| | |[[trinotate-software|trinotate]]|2.0.2|''module load trinotate/2.0.2''| |
 |[[twinscan-software|twinscan]]|3.5|''module load twinscan/3.5''| | |[[twinscan-software|twinscan]]|3.5|''module load twinscan/3.5''| |
 |[[umi-tools-software|umi-tools]]| 0.2.3 |''module load umi-tools/0.2.3''| | |[[umi-tools-software|umi-tools]]| 0.2.3 |''module load umi-tools/0.2.3''| |
-|[[unicycler-software|unicycler]]| 0.4.|''module load unicycler/0.4.7''| |+|[[unicycler-software|unicycler]]| 0.4.|''module load unicycler/0.5.0''| |
 |[[usearch-software|usearch]]| v7.0.1090 |''module load usearch/v7.0.1090''| | |[[usearch-software|usearch]]| v7.0.1090 |''module load usearch/v7.0.1090''| |
 |varscan|2.4.2|''module load varscan/2.4.2''| | |varscan|2.4.2|''module load varscan/2.4.2''| |
Line 335: Line 394:
 |[[vcftools-software|vcftools]]|0.1.16|''module load vcftools/0.1.16''| | |[[vcftools-software|vcftools]]|0.1.16|''module load vcftools/0.1.16''| |
 |[[velvet-software|velvet]]|1.2.10-kmer111|''module load velvet/1.2.10-kmer111''| | |[[velvet-software|velvet]]|1.2.10-kmer111|''module load velvet/1.2.10-kmer111''| |
-|[[vep-software|vep]]|92.1|''module load vep/92.1''| |+|[[velvetoptimiser-software|velvetoptimiser]]|2.2.6|''module load velvetoptimiser/2.2.6''| | 
 +|[[vep-software|vep]]|109.3|''module load vep/109.3''| |
 |[[vg-software|vg]]|1.27.0|''module load vg/1.27.0''| | |[[vg-software|vg]]|1.27.0|''module load vg/1.27.0''| |
 |[[viennarna-software|viennarna]]|2.4.14|''module load viennarna/2.4.14''| | |[[viennarna-software|viennarna]]|2.4.14|''module load viennarna/2.4.14''| |
list-of-software.1621531875.txt.gz · Last modified: 2021/05/20 17:31 by aorth