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list-of-software [2021/11/03 09:40] – aorthlist-of-software [2022/05/24 07:52] – aorth
Line 24: Line 24:
 |[[artemis-software|artemis]]|16.0.0|''module load act/16.0.0''| | |[[artemis-software|artemis]]|16.0.0|''module load act/16.0.0''| |
 |[[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]]|1.13|''module load bcftools/1.13''| | |[[bcftools-software|bcftools]]|1.13|''module load bcftools/1.13''| |
 +|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''| |
Line 40: Line 41:
 |[[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]]|2.12.0+|''module load blast/2.12.0+''| |
 |[[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|06-Aug-2013|''module load blat/06-Aug-2013''| |
 +|[[bmtagger-software|bmtagger]]|0.3.102.4|''module load bmtagger/0.3.102.4''| |
 |[[bowtie-software|bowtie1 ]]|1.2.3|''module load bowtie/1.2.3''| | |[[bowtie-software|bowtie1 ]]|1.2.3|''module load bowtie/1.2.3''| |
 |[[bowtie2-software|bowtie2 ]]|2.3.4.1|''module load bowtie2/2.3.4.1''| | |[[bowtie2-software|bowtie2 ]]|2.3.4.1|''module load bowtie2/2.3.4.1''| |
 |[[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 52: Line 54:
 |[[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''| |
 |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''| |
 |[[circos-software|circos]]|0.69-9|''module load circos/0.69-9''| | |[[circos-software|circos]]|0.69-9|''module load circos/0.69-9''| |
Line 69: Line 73:
 |[[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''| |
 |[[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''| |
 |[[edirect-software|edirect]]| 7.80 | ''module load edirect/7.80'' | | |[[edirect-software|edirect]]| 7.80 | ''module load edirect/7.80'' | |
 |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 82: Line 88:
 |[[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''| | |[[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''| |
Line 96: Line 103:
 |[[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]]|1.3.4|''module load freebayes/1.3.4''| | |[[freebayes-software|freebayes]]|1.3.4|''module load freebayes/1.3.4''| |
-|[[funannotate-software|funannotate]]|1.8.7|''module load funannotate/1.8.7''| |+|[[funannotate-software|funannotate]]|1.8.9|''module load funannotate/1.8.9''| |
 |[[gassflow-software|GassFlow ]]|1.0|''module load gassflow/1.0''| | |[[gassflow-software|GassFlow ]]|1.0|''module load gassflow/1.0''| |
 |[[gatk-software|gatk]]|4.2.2.0|''module load gatk/4.2.2.0''| | |[[gatk-software|gatk]]|4.2.2.0|''module load gatk/4.2.2.0''| |
Line 112: Line 119:
 |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 123: Line 131:
 |[[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''| | |[[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''| |
Line 129: Line 138:
 |[[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''| |
Line 138: Line 148:
 |[[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''| |
Line 149: Line 159:
 |[[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]]|1.4.0|''module load kma/1.4.0''| |
 |[[kmc-software|kmc]]|3.1.1|''module load kmc/3.1.1''| | |[[kmc-software|kmc]]|3.1.1|''module load kmc/3.1.1''| |
 |[[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]]|2.0.8-beta|''module load kraken/2.0.8-beta''| |
-|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 164: Line 175:
 |[[lighter-software|lighter]]|1.1.2|''module load lighter/1.1.2''| | |[[lighter-software|lighter]]|1.1.2|''module load lighter/1.1.2''| |
 |[[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]]|7.475|''module load mafft/7.475''| |
Line 179: Line 191:
 |[[mecat-software|MECAT]]|git-d04bfa84|''module load MECAT/git-d04bfa84''| | |[[mecat-software|MECAT]]|git-d04bfa84|''module load MECAT/git-d04bfa84''| |
 |[[medaka-software|medaka]]|1.4.3|''module load medaka/1.4.3''| | |[[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''| |
 +|[[metaeuk-software|metaeuk]]|git-9818d1a5|''module load metaeuk/git-9818d1a5''| |
 |[[metaphlan-software|metaphlan]]|3.0.13|''module load metaphlan/3.0.13''| | |[[metaphlan-software|metaphlan]]|3.0.13|''module load metaphlan/3.0.13''| |
 |[[metis-software|metis]]|5.1.0|''module load metis/5.1.0''| | |[[metis-software|metis]]|5.1.0|''module load metis/5.1.0''| |
Line 201: Line 214:
 |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|3.2.2|''module load mrbayes/3.2.2''| |
-|[[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]]|0.10.2|''module load nanopolish/0.10.2''| |
 |[[netmhcpan-software|netmhcpan]]|2.8|''module load netmhcpan/2.8''| | |[[netmhcpan-software|netmhcpan]]|2.8|''module load netmhcpan/2.8''| |
-|[[nextalign-software|nextalign]]|1.3.0|''module load nextalign/1.3.0''| | +|[[nextalign-software|nextalign]]|1.11.0|''module load nextalign/1.11.0''| | 
-|[[nextclade-software|nextclade]]|1.3.0|''module load nextclade/1.3.0''| |+|[[nextclade-software|nextclade]]|1.11.0|''module load nextclade/1.11.0''| |
 |[[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]]|21.04.3|''module load nextflow/21.04.3''| |+|[[nextflow-software|nextflow]]|21.10 (21.10.6)|''module load nextflow/21.10''| | 
 +|[[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 226: Line 240:
 |[[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 242: Line 257:
 |[[plink-software|plink]]|2.00-alpha|''module load plink/2.00-alpha''| | |[[plink-software|plink]]|2.00-alpha|''module load plink/2.00-alpha''| |
 |[[polyphen-software|polyphen]]|2.2.2|''module load polyphen/2.2.2''| | |[[polyphen-software|polyphen]]|2.2.2|''module load polyphen/2.2.2''| |
 +|[[poplddecay-software|poplddecay]]|3.41|''module load poplddecay/3.41''| |
 |[[porechop-software|porechop]]|0.2.4|''module load porechop/0.2.4''| | |[[porechop-software|porechop]]|0.2.4|''module load porechop/0.2.4''| |
 |[[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 259: Line 276:
 |[[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]]|4.2.0|''module load R/4.2''| |
 |[[racon-software|racon]]|1.3.1|''module load racon/1.3.1''| | |[[racon-software|racon]]|1.3.1|''module load racon/1.3.1''| |
 |[[rmblast-software|rmblast]]|2.11.0|''module load rmblast/2.11.0''| | |[[rmblast-software|rmblast]]|2.11.0|''module load rmblast/2.11.0''| |
Line 268: Line 285:
 |[[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''| |
Line 283: Line 300:
 |[[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 297: Line 314:
 |[[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''| |
 |snowhite|1.1.4|''module load snowhite/1.1.4''| | |snowhite|1.1.4|''module load snowhite/1.1.4''| |
Line 309: Line 326:
 |[[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 (3.15.4)|''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 316: Line 333:
 |[[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''| |
 |[[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''| |
Line 323: Line 342:
 |[[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]]|2.0.1|''module load stringtie2/2.0.1''| |
 |[[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''| |
Line 334: Line 354:
 |[[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''| |
 +|[[trimgalore-software|trimgalore]]|0.6.7|''module load trimgalore/0.6.7''| |
 |[[trimmomatic-software|trimmomatic]]|0.39|''module load trimmomatic/0.39''| | |[[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''| |
Line 346: Line 367:
 |[[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''| |
 +|[[velvetoptimiser-software|velvetoptimiser]]|2.2.6|''module load velvetoptimiser/2.2.6''| |
 |[[vep-software|vep]]|92.1|''module load vep/92.1''| | |[[vep-software|vep]]|92.1|''module load vep/92.1''| |
 |[[vg-software|vg]]|1.27.0|''module load vg/1.27.0''| | |[[vg-software|vg]]|1.27.0|''module load vg/1.27.0''| |
list-of-software.txt · Last modified: 2024/06/19 11:50 by aorth