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list-of-software [2022/03/14 11:45]
aorth
list-of-software [2022/06/23 09:41] (current)
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 75: Line 77:
 |[[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''| |
 +|[[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'' | |
 |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''| |
 |est2uni|latest|''module load est2uni/latest''| | |est2uni|latest|''module load est2uni/latest''| |
-|[[ete-software|ete]]|3.1.2|''module load ete/3.1.2''| | 
 |[[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 104: Line 108:
 |[[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 124: Line 128:
 |[[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]]|5.0.11|''module load guppy/5.0.11''| |+|[[guppy-software|guppy]]|6.0.1|''module load guppy/6.0.1''| |
 |[[halcyon-software|halcyon]]|0.1.1|''module load halcyon/0.1.1''| | |[[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''| |
Line 135: Line 139:
 |[[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]]|1.13|''module load htslib/1.13''| |+|[[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''| |
 |[[idba-software|idba]]|1.1.2|''module load idba/1.1.2''| | |[[idba-software|idba]]|1.1.2|''module load idba/1.1.2''| |
Line 144: Line 149:
 |[[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 197: Line 202:
 |[[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''| |
 +|[[minimac4-software|minimac4]]|1.0.3|''module load minimac4/1.0.3''| |
 |[[minimap2-software|minimap2]]|2.22|''module load minimap2/2.22''| | |[[minimap2-software|minimap2]]|2.22|''module load minimap2/2.22''| |
 |[[minpath-software|MinPath]]|1.0.2|''module load MinPath/1.2''| | |[[minpath-software|MinPath]]|1.0.2|''module load MinPath/1.2''| |
Line 210: Line 216:
 |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]]|21.10 (21.10.6)|''module load nextflow/21.10''| | |[[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 257: Line 264:
 |[[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 270: Line 278:
 |[[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 287: Line 295:
 |[[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]]|2.2.3|''module load ruby/2.2.3''| |
-|[[samtools-software|samtools]]|1.13|''module load samtools/1.13''| |+|[[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''| |
Line 327: Line 335:
 |[[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''| |
 |[[stacks-software|stacks]]|1.24|''module load stacks/1.24''| | |[[stacks-software|stacks]]|1.24|''module load stacks/1.24''| |
 |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]]|2.0.1|''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 358: Line 369:
 |[[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.1647258323.txt.gz · Last modified: 2022/03/14 11:45 by aorth