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list-of-software [2022/02/22 14:31] – aorthlist-of-software [2022/05/09 12:00] – aorth
Line 44: Line 44:
 |[[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''| |
Line 53: 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''| |
Line 58: Line 60:
 |censor|4.2.28|''module load censor/4.2.28''| | |censor|4.2.28|''module load censor/4.2.28''| |
 |[[centrifuge-software|centrifuge]]|1.0.4|''module load centrifuge/1.0.4''| | |[[centrifuge-software|centrifuge]]|1.0.4|''module load centrifuge/1.0.4''| |
-|[[changeo-software|changeo]]|1.0.0|''module load changeo/1.0.0''| |+|[[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 72: Line 74:
 |cufflinks|2.2.1|''module load cufflinks/2.2.1''| | |cufflinks|2.2.1|''module load cufflinks/2.2.1''| |
 |[[cutadapt-software|cutadapt]]|3.5|''module load cutadapt/3.5''| | |[[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''| |
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 |[[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''| |
Line 102: Line 106:
 |[[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 114: Line 118:
 |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''| |
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 |[[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 156: Line 161:
 |[[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 206: Line 212:
 |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 231: Line 238:
 |[[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 322: Line 330:
 |[[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 329: Line 339:
 |[[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 353: Line 364:
 |[[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