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list-of-software [2025/02/28 12:52] – aorthlist-of-software [2025/12/05 07:28] (current) – aorth
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 |[[ampssembler-software|ampssembler]]|git-51f0081|''module load ampssembler/git-51f0081''| | |[[ampssembler-software|ampssembler]]|git-51f0081|''module load ampssembler/git-51f0081''| |
 |amos|3.1.0|''module load amos/3.1.0''| | |amos|3.1.0|''module load amos/3.1.0''| |
 +|[[amrfinder-software|amrfinder]]|4.0.22|''module load amrfinder/4.0.22''| |
 |[[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''| |
Line 27: Line 28:
 |[[artic-tools-software|artic-tools]]|0.3.1|''module load artic-tools/0.3.1''| | |[[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''| | |[[aspera-cli-software|aspera-cli]]|4.15.0|''module load aspera-cli/4.15.0''| |
 +|[[assembly-scan-software|assembly-scan]]|1.0.0|''module load assembly-scan/1.0.0''| |
 |[[augustus-software|augustus]]|3.3|''module load augustus/3.3''| | |[[augustus-software|augustus]]|3.3|''module load augustus/3.3''| |
 |[[awscli-software|awscli]]|2.4.0|''module load awscli/2''| | |[[awscli-software|awscli]]|2.4.0|''module load awscli/2''| |
Line 34: Line 36:
 |bayescan|2.1|''module load bayescan/2.1''| | |bayescan|2.1|''module load bayescan/2.1''| |
 |[[bbmap-software|bbmap]]|38.95|''module load bbmap/38.95''| | |[[bbmap-software|bbmap]]|38.95|''module load bbmap/38.95''| |
-|[[bcftools-software|bcftools]]|1.15.1|''module load bcftools/1.15.1''| |+|[[bcftools-software|bcftools]]|1.22|''module load bcftools/1.22''| |
 |bcl2fastq|2.20.0.422|''bcl2fastq''| | |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''| |
Line 40: Line 42:
 |[[beast2-software|beast2]]|2.6.4|''module load beast2/2.6.4''| | |[[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]]|2.31.1|''module load bedtools/2.31.1''| |
 |[[binpacker-software|binpacker]]|1.0|''module load binpacker/1.0''| | |[[binpacker-software|binpacker]]|1.0|''module load binpacker/1.0''| |
 |[[bioperl-software|bioperl]]|1.7.2|''module load bioperl/1.7.2''| | |[[bioperl-software|bioperl]]|1.7.2|''module load bioperl/1.7.2''| |
Line 50: Line 52:
 |[[bmtagger-software|bmtagger]]|0.3.102.4|''module load bmtagger/0.3.102.4''| | |[[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]]|2.5.0|''module load bowtie2/2.5.0''| |+|[[bowtie2-software|bowtie2]]|2.5.4|''module load bowtie2/2.5.4''| |
 |[[brig-software|brig]]|0.95|''module load brig/0.95''| | |[[brig-software|brig]]|0.95|''module load brig/0.95''| |
 |[[busco-software|BUSCO ]]|5.2.2|''module load BUSCO/5.2.2''| | |[[busco-software|BUSCO ]]|5.2.2|''module load BUSCO/5.2.2''| |
-|[[bwa-software|bwa]]|0.7.18|''module load bwa/0.7.18''| |+|[[bwa-software|bwa]]|0.7.19|''module load bwa/0.7.19''| |
 |[[bwa-mem2-software|bwa-mem2]]|2.2.1|''module load bwa-mem2/2.2.1''| | |[[bwa-mem2-software|bwa-mem2]]|2.2.1|''module load bwa-mem2/2.2.1''| |
 |[[cafe-software|cafe]]|4.1|''module load cafe/4.1''| | |[[cafe-software|cafe]]|4.1|''module load cafe/4.1''| |
Line 78: Line 80:
 |[[coperead-software|COPEread]]|1.1.2|''module load coperead/1.1.2''| | |[[coperead-software|COPEread]]|1.1.2|''module load coperead/1.1.2''| |
 |[[corset-software|corset]]|1.06|''module load corset/1.06''| | |[[corset-software|corset]]|1.06|''module load corset/1.06''| |
 +|[[crispresso2-software|crispresso2]]|2.3.2|''module load crispresso2/2.3.2''| |
 |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]]|5.0|''module load cutadapt/5.0''| |
 |[[cytoscape-software|cytoscape]]|3.10.2|''module load cytoscape/3.10.2''| | |[[cytoscape-software|cytoscape]]|3.10.2|''module load cytoscape/3.10.2''| |
 |[[czid-cli-software|czid-cli]]|3.0.2|''module load czid-cli/3.0.2''| | |[[czid-cli-software|czid-cli]]|3.0.2|''module load czid-cli/3.0.2''| |
Line 86: Line 89:
 |[[diamond-software|diamond]]|2.0.14|''module load diamond/2.0.14''| | |[[diamond-software|diamond]]|2.0.14|''module load diamond/2.0.14''| |
 |[[disty-software|disty]]|0.1.0|''module load disty/0.1.0''| | |[[disty-software|disty]]|0.1.0|''module load disty/0.1.0''| |
-|[[dorado-software|dorado]]|0.9.1|''module load dorado/0.9.1''| |+|[[dnaapler-software|dnaapler]]|1.2.0|''module load dnaapler/1.2.0''| | 
 +|[[dorado-software|dorado]]|1.3.0|''module load dorado/1.3.0''| | 
 +|[[dragonflye-software|dragonflye]]|1.2.1|''module load dragonflye/1.2.1''| |
 |[[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''| | |[[eagle-software|eagle]]|2.4.1|''module load eagle/2.4.1''| |
 +|[[easer-software|easer]]|1.7.0|''module load easer/1.7.0''| |
 +|[[ectyper-software|ectyper]]|2.0.0|''module load ectyper/2.0.0''| |
 |[[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'' | | |[[eggnog-mapper-software|eggnog-mapper]]| 2.1.9 | ''module load eggnog-mapper/2.1.9'' | |
Line 95: Line 102:
 |[[emblmygff3-software|emblmygff3]]|2.1|''module load emblmygff3/2.1''| | |[[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''| | 
 |est2uni|latest|''module load est2uni/latest''| | |est2uni|latest|''module load est2uni/latest''| |
 |[[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''| |
 +|[[ezclermont-software|ezclermont]]|0.7.0|''module load ezclermont/0.7.0''| |
 |[[falco-software|falco]]|0.3.0|''module load falco/0.3.0''| | |[[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]]|0.24.1|''module load fastp/0.24.1''| |
 |[[fastPHASE-software|fastPHASE]]|1.4.8|''module load fastPHASE/1.4.8''| | |[[fastPHASE-software|fastPHASE]]|1.4.8|''module load fastPHASE/1.4.8''| |
 +|[[fastq-demux-software|fastq_demux]]|git-dff5823f|''module load fastq_demux/git-dff5823f''| |
 +|[[fastq-scan-software|fastq-scan]]|1.0.1|''module load fastq-scan/1.0.1''| |
 |[[fastqc-software|fastqc]]|0.11.9|''module load fastqc/0.11.9''| | |[[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''| |
Line 115: Line 124:
 |[[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]]|2.9.4|''module load flye/2.9.4''| |+|[[flye-software|flye]]|2.9.6|''module load flye/2.9.6''| |
 |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]]|1.8.15|See software page| | |[[funannotate-software|funannotate]]|1.8.15|See software page| |
-|[[gassflow-software|GassFlow ]]|1.0|''module load gassflow/1.0''| |+|[[gambit-software|gambit]]|1.1.0|''module load gambit/1.1.0''| | 
 +|[[gassflow-software|GassFlow]]|1.0|''module load gassflow/1.0''| |
 |[[gatk-software|gatk]]|4.4.0.0|''module load gatk/4.4.0.0''| | |[[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''| |
Line 130: Line 140:
 |glimmer|3.02|''module load glimmer/3.02''| | |glimmer|3.02|''module load glimmer/3.02''| |
 |glu|1.0b3-prerelease4|''module load glu/1.0b3-prerelease4''| | |glu|1.0b3-prerelease4|''module load glu/1.0b3-prerelease4''| |
 +|[[gofasta-software|gofasta]]|1.2.3|''module load gofasta/1.2.3''| |
 |[[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''| | |[[graphlan-software|graphlan]]|1.1.3|''module load graphlan/1.1.3''| |
Line 138: Line 149:
 |[[gsea-software|GSEA]]|2.2.3|''module load gsea/2.2.3''| | |[[gsea-software|GSEA]]|2.2.3|''module load gsea/2.2.3''| |
 |[[gtdbtk-software|gtdbtk]]|1.1.1|''module load gtdbtk/1.1.1''| | |[[gtdbtk-software|gtdbtk]]|1.1.1|''module load gtdbtk/1.1.1''| |
 +|[[gubbins-software|gubbins]]|3.4|''module load gubbins/3.4''| |
 |[[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''| | |[[guppy-software|guppy]]|6.2.1|''module load guppy/6.2.1''| |
Line 146: Line 158:
 |[[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''| |
-|[[hmmer-software|hmmer]]|3.3|''module load hmmer/3.3''| | 
-|[[hmmIBD-software|hmmIBD]]|2.0.4|''module load hmmIBD/2.0.4''| | 
 |[[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''| | |[[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''| |
 +|[[hmmer-software|hmmer]]|3.3|''module load hmmer/3.3''| |
 +|[[hmmIBD-software|hmmIBD]]|2.0.4|''module load hmmIBD/2.0.4''| |
 +|[[hostile-software|hostile]]|2.0.0|''module load hostile/2.0.0''| |
 |[[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]]|1.15.1|''module load htslib/1.15.1''| |+|[[htslib-software|htslib]]|1.22.1|''module load htslib/1.22.1''| |
 |[[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''| | |[[hyphy-software|hyphy]]|2.5.48|''module load hyphy/2.5.48''| |
Line 161: Line 174:
 |[[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]]|2.2.0|''module load iqtree/2.2.0''| |+|[[iqtree-software|iqtree]]|2.4.0|''module load iqtree/2.4.0''| |
 |[[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 169: Line 182:
 |i-tasser|latest|''module load i-tasser/latest''| | |i-tasser|latest|''module load i-tasser/latest''| |
 |[[ivar-software|ivar]]|1.3.1|''module load ivar/1.3.1''| | |[[ivar-software|ivar]]|1.3.1|''module load ivar/1.3.1''| |
 +|[[jclusterfunk-software|jclusterfunk]]|0.0.25|''module load jclusterfunk/0.0.25''| |
 |[[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''| |
Line 175: Line 189:
 |[[kaiju-software|kaiju]]|1.8.2|''module load kaiju/1.8.2''| | |[[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''| |
 +|[[kaptive-software|kaptive]]|3.1.0|''module load kaptive/3.1.0''| |
 |[[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''| |+|[[kleborate-software|kleborate]]|3.2.4|''module load kleborate/3.2.4''| | 
 +|[[kma-software|kma]]|1.4.21|''module load kma/1.4.21''| |
 |[[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''| | |[[kmerfreq-software|kmerfreq]]|git-90fca00d|''module load kmerfreq/git-90fca00d''| |
Line 206: Line 222:
 |[[mcscanx-software|mcscanx]]|git-97e74f40|''module load mcscanx/git-97e74f40''| | |[[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]]|1.4.3|''module load medaka/1.4.3''| |+|[[medaka-software|medaka]]|1.12.1|''module load medaka/1.12.1''| |
 |[[megahit-software|megahit]]|1.2.9|''module load megahit/1.2.9''| | |[[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''| |
Line 221: Line 237:
 |[[minimac3-software|minimac3]]|2.0.1|''module load minimac3/2.0.1''| | |[[minimac3-software|minimac3]]|2.0.1|''module load minimac3/2.0.1''| |
 |[[minimac4-software|minimac4]]|1.0.3|''module load minimac4/1.0.3''| | |[[minimac4-software|minimac4]]|1.0.3|''module load minimac4/1.0.3''| |
-|[[minimap2-software|minimap2]]|2.24|''module load minimap2/2.24''| |+|[[minimap2-software|minimap2]]|2.28|''module load minimap2/2.28''| |
 |[[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 229: Line 245:
 |mkatari-ilri|latest|''module load mkatari-ilri/latest''| | |mkatari-ilri|latest|''module load mkatari-ilri/latest''| |
 |[[mlst-software|mlst]]|2.23.0|''module load mlst/2.23.0''| | |[[mlst-software|mlst]]|2.23.0|''module load mlst/2.23.0''| |
 +|[[mmseqs2-software|mmseqs2]]|17-b804f|''module load mmseqs2/17-b804f''| |
 |[[modeller-software|modeller]]|9.17|''module load modeller/9.17''| | |[[modeller-software|modeller]]|9.17|''module load modeller/9.17''| |
 |[[modeltest-software|modeltest]]|0.1.7|''module load modeltest/0.1.7''| | |[[modeltest-software|modeltest]]|0.1.7|''module load modeltest/0.1.7''| |
Line 239: Line 256:
 |[[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''| |
 +|[[nanoplot-software|nanoplot]]|1.42.0|''module load nanoplot/1.42.0''| |
 |[[nanopolish-software|nanopolish]]|0.14.0|''module load nanopolish/0.14.0''| | |[[nanopolish-software|nanopolish]]|0.14.0|''module load nanopolish/0.14.0''| |
 +|[[nanoq-software|nanoq]]|0.10.0|''module load nanoq/0.10.0''| |
 |[[nanoqc-software|nanoqc]]|git-a7bcbdce|''module load nanoqc/git-a7bcbdce''| | |[[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''| |
Line 245: Line 264:
 |[[nextclade-software|nextclade]]|2.11.0|''module load nextclade/2.11.0''| | |[[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]]|24.04 (24.04.2)|''module load nextflow/24.04''| |+|[[nextflow-software|nextflow]]|25.04 (25.04.6)|''module load nextflow/25.04''| |
 |[[ngs-tools-software|ngs-tools]]|3.0.0|''module load ngs-tools/3.0.0''| | |[[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''| |
Line 276: Line 295:
 |[[picard-software|picard]]|2.27.5|''module load picard/2.27.5''| | |[[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]]|1.24|''module load pilon/1.24''| |
 |[[plasmidid-software|plasmidid]]|1.6.5|''module load plasmidid/1.6.5''| | |[[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''| |
Line 282: Line 301:
 |[[pod5-software|pod5]]|0.3.2|''module load pod5/0.3.2''| | |[[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''| |
 +|[[polypolish-software|polypolish]]|0.6.0|''module load polypolish/0.6.0''| |
 |[[poplddecay-software|poplddecay]]|3.41|''module load poplddecay/3.41''| | |[[poplddecay-software|poplddecay]]|3.41|''module load poplddecay/3.41''| |
 |[[porechop-software|porechop]]|0.3.2pre|''module load porechop/0.3.2pre''| | |[[porechop-software|porechop]]|0.3.2pre|''module load porechop/0.3.2pre''| |
Line 294: Line 314:
 |[[provean-software|provean]]|1.1.5|''module load provean/1.1.5''| | |[[provean-software|provean]]|1.1.5|''module load provean/1.1.5''| |
 |[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|''module load purge_haplotigs/1.1.1''| | |[[purge-haplotigs-software|purge_haplotigs]]|1.1.1|''module load purge_haplotigs/1.1.1''| |
-|[[python-software|python]]|3.9.19|''module load python/3.9''| |+|[[python-software|python]]|3.10.16|''module load python/3.10''| |
 |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''| |
Line 300: Line 320:
 |[[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]]|4.3.1|''module load R/4.3''| |+|[[r-software|R]]|4.4.3|''module load R/4.4''| |
 |[[racon-software|racon]]|1.5.0|''module load racon/1.5.0''| | |[[racon-software|racon]]|1.5.0|''module load racon/1.5.0''| |
 +|[[rapidnj-software|rapidnj]]|2.3.2|''module load rapidnj/2.3.2''| |
 |[[rapsearch-software|rapsearch]]|2.22|''module load rapsearch/2.22''| | |[[rapsearch-software|rapsearch]]|2.22|''module load rapsearch/2.22''| |
 +|[[rasusa-software|rasusa]]|2.1.0|''module load rasusa/2.1.0''| |
 |[[ratt-software|RATT]]|r18|''module load ratt/r18''| | |[[ratt-software|RATT]]|r18|''module load ratt/r18''| |
 +|[[raven-software|raven]]|1.8.3|''module load raven/1.8.3''| |
 |[[raxml-software|RAxML]]|8.2.12|''module load RAxML/8.2.12''| | |[[raxml-software|RAxML]]|8.2.12|''module load RAxML/8.2.12''| |
 +|[[raxml-ng-software|raxml-ng]]|1.2.2|''module load raxml-ng/1.2.2''| |
 |[[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''| | |[[rcorrector-software|rcorrector]]|1.0.5|''module load rcorrector/1.0.5''| |
Line 313: Line 337:
 |[[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''| |
 +|[[resfinder-software|resfinder]]|4.7.2|''module load resfinder/4.7.2''| |
 |[[rgi-software|rgi]]|6.0.2|''module load rgi/6.0.2''| | |[[rgi-software|rgi]]|6.0.2|''module load rgi/6.0.2''| |
 |[[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 318: Line 343:
 |[[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]]|1.3.3|''module load RSEM/1.3.3''| |
 |[[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]]|3.1 (3.1.4)|''module load ruby/3.1''| | |[[ruby-software|ruby]]|3.1 (3.1.4)|''module load ruby/3.1''| |
-|[[samtools-software|samtools]]|1.15.1|''module load samtools/1.15.1''| |+|[[samclip-software|samclip]]|0.4.0|''module load samclip/0.4.0''| | 
 +|[[samtools-software|samtools]]|1.22.1|''module load samtools/1.22.1''| |
 |[[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 333: Line 359:
 |[[seqkit-software|seqkit]]|0.11.0|''module load seqkit/0.11.0''| | |[[seqkit-software|seqkit]]|0.11.0|''module load seqkit/0.11.0''| |
 |[[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]]|1.4|''module load seqtk/1.4''| |
 |[[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''| |
Line 339: Line 365:
 |[[shapeit-software|shapeit]]|2.904|''module load shapeit/2.904''| | |[[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''| |
 +|[[shovill-software|shovill]]|1.1.0|''module load shovill/1.1.0''| |
 |[[sickle-software|sickle]]|1.33|''module load sickle/1.33''| | |[[sickle-software|sickle]]|1.33|''module load sickle/1.33''| |
 |[[sift-software|sift]]|4.0.3b|''module load sift/4.0.3b''| | |[[sift-software|sift]]|4.0.3b|''module load sift/4.0.3b''| |
 |[[sistr-software|sistr]]|1.0.2|''module load sistr/1.0.2''| | |[[sistr-software|sistr]]|1.0.2|''module load sistr/1.0.2''| |
 +|[[ska2-software|ska2]]|0.4.0|''module load ska2/0.4.0''| |
 +|[[skesa-software|skesa]]|2.5.1|''module load skesa/2.5.1''| |
 |[[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''| |
Line 350: Line 379:
 |[[snpeff-software|snpeff]]|5.1|''module load snpeff/5.1''| | |[[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-dists-software|snp-dists]]|0.8.2|''module load snp-dists/0.8.2''| |
 |[[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''| |
 |[[soapdenovo2-software|SOAPdenovo2]]|git-c4d2f5ee|''module load SOAPdenovo2/git-c4d2f5ee''| | |[[soapdenovo2-software|SOAPdenovo2]]|git-c4d2f5ee|''module load SOAPdenovo2/git-c4d2f5ee''| |
Line 357: Line 387:
 |[[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]]|3.15 (3.15.5)|''module load spades/3.15''| |+|[[spades-software|spades]]|4.2.0|''module load spades/4.2.0''| |
 |[[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 363: Line 393:
 |spread|1.0.6|''module load spread/1.0.6''| | |spread|1.0.6|''module load spread/1.0.6''| |
 |[[squid-software|squid]]|1.9g|''module load squid/1.9g''| | |[[squid-software|squid]]|1.9g|''module load squid/1.9g''| |
 +|[[squirrel-software|squirrel]]|1.1.2|''module load squirrel/1.1.2''| |
 |[[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''| | |[[sra-tools-software|sra-tools]]|3.0.0|''module load sra-tools/3.0.0''| |
Line 381: Line 412:
 |[[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]]|5.2.94|''module load tassel/5.2.94''| | |[[tassel-software|tassel]]|5.2.94|''module load tassel/5.2.94''| |
 +|[[taxpasta-software|taxpasta]]|0.7.0|''module load taxpasta/0.7.0''| |
 |[[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''| |
list-of-software.1740747141.txt.gz · Last modified: by aorth