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list-of-software [2020/08/19 19:06] – aorthlist-of-software [2020/11/09 09:56] – aorth
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 ^Name           ^Latest version                ^How to load                 ^Contact   ^ ^Name           ^Latest version                ^How to load                 ^Contact   ^
-|[[abyss-software|abyss]]|2.1.4|''module load abyss/2.1.4''| | 
 |abacas|1.3.1|''module load abacas/1.3.1''| | |abacas|1.3.1|''module load abacas/1.3.1''| |
 +|[[abricate-software|abricate]]|1.0.1|''module load abricate/1.0.1''| |
 +|[[abyss-software|abyss]]|2.1.4|''module load abyss/2.1.4''| |
 |[[ace-software|ace]]|1.01|''module load ace/1.01''| | |[[ace-software|ace]]|1.01|''module load ace/1.01''| |
 |[[ACT-software|ACT]]|13.0.0|''module load act/13.0.0''| | |[[ACT-software|ACT]]|13.0.0|''module load act/13.0.0''| |
Line 91: Line 92:
 |[[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]]|2.4.2|''module load flye/2.4.2''| |+|[[flye-software|flye]]|2.8.1|''module load flye/2.8.1''| |
 |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''| |
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 |[[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''| |
 |[[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''| |
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 |[[hmmer-software|hmmer]]|3.3|''module load hmmer/3.3''| | |[[hmmer-software|hmmer]]|3.3|''module load hmmer/3.3''| |
 |[[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''| |
 |[[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''| |
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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''| |
-|[[igtree-software|iqtree]]|1.6.12|''module load iqtree/1.6.12''| |+|[[iqtree-software|iqtree]]|1.6.12|''module load iqtree/1.6.12''| |
 |[[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''| |
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 |[[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''| |
-|[[jellyfish-software|jellyfish]]|2.2.9|''module load jellyfish/2.2.9''| |+|[[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''| |
 |julia|v0.1.2|''module load julia/v0.1.2''| | |julia|v0.1.2|''module load julia/v0.1.2''| |
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 |lucy|1.19p|''module load lucy/1.19p''| | |lucy|1.19p|''module load lucy/1.19p''| |
 |[[mafft-software|mafft]]|7.313|''module load mafft/7.313''| | |[[mafft-software|mafft]]|7.313|''module load mafft/7.313''| |
 +|[[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''| |
 |[[marginalign-software|marginalign]]|git-2369dafd|''module load marginalign/git-2369dafd''| | |[[marginalign-software|marginalign]]|git-2369dafd|''module load marginalign/git-2369dafd''| |
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 |mkatari-ilri|latest|''module load mkatari-ilri/latest''| | |mkatari-ilri|latest|''module load mkatari-ilri/latest''| |
 |[[modeller-software|modeller]]|9.17|''module load modeller/9.17''| | |[[modeller-software|modeller]]|9.17|''module load modeller/9.17''| |
 +|[[mosdepth-software|mosdepth]]|0.2.9|''module load mosdepth/0.2.9''| |
 |[[mothur-software|mothur]]|1.44.1|''module load mothur/1.44.1''| | |[[mothur-software|mothur]]|1.44.1|''module load mothur/1.44.1''| |
 |[[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|3.2.2|''module load mrbayes/3.2.2''| |
-|[[multiqc-software|multiqc]]|1.4|''module load multiqc/1.4''| |+|[[multiqc-software|multiqc]]|1.6|''module load multiqc/1.6''| |
 |[[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]]|3.23|''module load MUMmer/3.23''| | |[[mummer-software|MUMmer]]|3.23|''module load MUMmer/3.23''| |
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 |[[nextflow-software|nextflow]]|20.04.1|''module load nextflow/20.04.1''| | |[[nextflow-software|nextflow]]|20.04.1|''module load nextflow/20.04.1''| |
 |[[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''| |
 |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|''module load ngsqctoolkit/2.3.3''| | |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|''module load ngsqctoolkit/2.3.3''| |
 |novacraft|3.02.07|''module load novacraft/3.02.07''| | |novacraft|3.02.07|''module load novacraft/3.02.07''| |
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 |[[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''| |
 |[[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''| |
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 |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]]|2019.10|''module load qiime2/2019.10''| |+|[[qiime2-software|qiime2]]|2020.8|''module load qiime2/2020.8''| |
 |[[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''| |
Line 235: Line 242:
 |[[r-software|R]]|3.6.1|''module load R/3.6''| | |[[r-software|R]]|3.6.1|''module load R/3.6''| |
 |[[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]]|2.2.28|''module load rmblast/2.2.28''| |+|[[rmblast-software|rmblast]]|2.10.0|''module load rmblast/2.10.0''| |
 |[[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''| |
Line 241: Line 248:
 |[[ray-software|ray]]|2.3.1|''module load ray/2.3.1''| | |[[ray-software|ray]]|2.3.1|''module load ray/2.3.1''| |
 |[[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''| |
-|repeatmasker|4.0.5|''module load repeatmasker/4.0.5''| |+|[[repeatmasker-software|repeatmasker]]|4.1.1|''module load repeatmasker/4.1.1''| |
 |[[repseqio-software|repseqio]]|1.3.3|''module load repseqio/1.3.3''| | |[[repseqio-software|repseqio]]|1.3.3|''module load repseqio/1.3.3''| |
 |[[root-software|root]]|6.08.06|''module load root/6.08.06''| | |[[root-software|root]]|6.08.06|''module load root/6.08.06''| |
Line 250: Line 257:
 |[[samtools-software|samtools]]|1.9|''module load samtools/1.9''| | |[[samtools-software|samtools]]|1.9|''module load samtools/1.9''| |
 |[[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]]|0.9.1|''module load salmon/0.9.1''| |+|[[salmon-software|salmon]]|1.3.0|''module load salmon/1.3.0''| |
 |[[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''| |
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 |[[seqqs-software|seqqs]]|git-3d053750|''module load seqqs/git-3d053750''| | |[[seqqs-software|seqqs]]|git-3d053750|''module load seqqs/git-3d053750''| |
 |[[seqtk-software|seqtk]]|1.3|''module load seqtk/1.3''| | |[[seqtk-software|seqtk]]|1.3|''module load seqtk/1.3''| |
 +|[[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''| |
 |[[shasta-software|shasta]]|0.4.0|''module load shasta/0.4.0''| | |[[shasta-software|shasta]]|0.4.0|''module load shasta/0.4.0''| |
Line 267: Line 275:
 |[[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]]|5.7.0|''module load snakemake/5.7.0''| |
 +|[[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''| |
 |[[snpeff-software|SnpEff & SnpSift]]|4.1g|''module load snpeff/4.1g''| | |[[snpeff-software|SnpEff & SnpSift]]|4.1g|''module load snpeff/4.1g''| |
Line 301: Line 310:
 |[[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]]|4.0.4|''module load trf/4.0.4''| |+|[[trf-software|trf]]|4.0.9|''module load trf/4.0.9''| |
 |[[trimmomatic-software|trimmomatic]]|0.38|''module load trimmomatic/0.38''| | |[[trimmomatic-software|trimmomatic]]|0.38|''module load trimmomatic/0.38''| |
-|[[trinity-software|trinity]]|v2.6.6|''module load trinity/v2.6.6''| |+|[[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''| |
Line 314: Line 323:
 |[[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''| | |[[vep-software|vep]]|92.1|''module load vep/92.1''| |
 +|[[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''| |
 |[[virusdetect-software|virusdetect]]|1.7|''module load virusdetect/1.7''| | |[[virusdetect-software|virusdetect]]|1.7|''module load virusdetect/1.7''| |
list-of-software.txt · Last modified: 2024/06/19 11:50 by aorth