list-of-software
Differences
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| list-of-software [2025/05/21 11:52] – aorth | list-of-software [2025/12/05 07:28] (current) – aorth | ||
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| |bayescan|2.1|'' | |bayescan|2.1|'' | ||
| |[[bbmap-software|bbmap]]|38.95|'' | |[[bbmap-software|bbmap]]|38.95|'' | ||
| - | |[[bcftools-software|bcftools]]|1.17|'' | + | |[[bcftools-software|bcftools]]|1.22|'' |
| |bcl2fastq|2.20.0.422|'' | |bcl2fastq|2.20.0.422|'' | ||
| |[[beagle-software|beagle]]|3.1.2|'' | |[[beagle-software|beagle]]|3.1.2|'' | ||
| Line 80: | Line 80: | ||
| |[[coperead-software|COPEread]]|1.1.2|'' | |[[coperead-software|COPEread]]|1.1.2|'' | ||
| |[[corset-software|corset]]|1.06|'' | |[[corset-software|corset]]|1.06|'' | ||
| + | |[[crispresso2-software|crispresso2]]|2.3.2|'' | ||
| |cufflinks|2.2.1|'' | |cufflinks|2.2.1|'' | ||
| |[[cutadapt-software|cutadapt]]|5.0|'' | |[[cutadapt-software|cutadapt]]|5.0|'' | ||
| Line 89: | Line 90: | ||
| |[[disty-software|disty]]|0.1.0|'' | |[[disty-software|disty]]|0.1.0|'' | ||
| |[[dnaapler-software|dnaapler]]|1.2.0|'' | |[[dnaapler-software|dnaapler]]|1.2.0|'' | ||
| - | |[[dorado-software|dorado]]|0.9.5|'' | + | |[[dorado-software|dorado]]|1.3.0|'' |
| |[[dragonflye-software|dragonflye]]|1.2.1|'' | |[[dragonflye-software|dragonflye]]|1.2.1|'' | ||
| |[[drep-software|drep]]|2.5.4|'' | |[[drep-software|drep]]|2.5.4|'' | ||
| |[[ea-utils-software|ea-utils]]|1.04.807|'' | |[[ea-utils-software|ea-utils]]|1.04.807|'' | ||
| |[[eagle-software|eagle]]|2.4.1|'' | |[[eagle-software|eagle]]|2.4.1|'' | ||
| + | |[[easer-software|easer]]|1.7.0|'' | ||
| + | |[[ectyper-software|ectyper]]|2.0.0|'' | ||
| |[[edirect-software|edirect]]| 7.80 | '' | |[[edirect-software|edirect]]| 7.80 | '' | ||
| |[[eggnog-mapper-software|eggnog-mapper]]| 2.1.9 | '' | |[[eggnog-mapper-software|eggnog-mapper]]| 2.1.9 | '' | ||
| Line 99: | Line 102: | ||
| |[[emblmygff3-software|emblmygff3]]|2.1|'' | |[[emblmygff3-software|emblmygff3]]|2.1|'' | ||
| |[[emboss-software|emboss]]|6.6.0|'' | |[[emboss-software|emboss]]|6.6.0|'' | ||
| - | |[[easer-software|easer]]|1.7.0|'' | ||
| |est2uni|latest|'' | |est2uni|latest|'' | ||
| |[[exabayes-software|exabayes]]|1.4.1|'' | |[[exabayes-software|exabayes]]|1.4.1|'' | ||
| |[[express-software|express]]|1.5.1|'' | |[[express-software|express]]|1.5.1|'' | ||
| + | |[[ezclermont-software|ezclermont]]|0.7.0|'' | ||
| |[[falco-software|falco]]|0.3.0|'' | |[[falco-software|falco]]|0.3.0|'' | ||
| |[[falcon-phase-software|falcon-phase]]|git-7c50154e|'' | |[[falcon-phase-software|falcon-phase]]|git-7c50154e|'' | ||
| Line 108: | Line 111: | ||
| |[[fastp-software|fastp]]|0.24.1|'' | |[[fastp-software|fastp]]|0.24.1|'' | ||
| |[[fastPHASE-software|fastPHASE]]|1.4.8|'' | |[[fastPHASE-software|fastPHASE]]|1.4.8|'' | ||
| + | |[[fastq-demux-software|fastq_demux]]|git-dff5823f|'' | ||
| |[[fastq-scan-software|fastq-scan]]|1.0.1|'' | |[[fastq-scan-software|fastq-scan]]|1.0.1|'' | ||
| |[[fastqc-software|fastqc]]|0.11.9|'' | |[[fastqc-software|fastqc]]|0.11.9|'' | ||
| Line 125: | Line 129: | ||
| |[[freebayes-software|freebayes]]|1.3.4|'' | |[[freebayes-software|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|'' | + | |[[gambit-software|gambit]]|1.1.0|'' |
| + | |[[gassflow-software|GassFlow]]|1.0|'' | ||
| |[[gatk-software|gatk]]|4.4.0.0|'' | |[[gatk-software|gatk]]|4.4.0.0|'' | ||
| |[[gapfiller-software|gapfiller]]|1.10|'' | |[[gapfiller-software|gapfiller]]|1.10|'' | ||
| Line 161: | Line 166: | ||
| |[[hostile-software|hostile]]|2.0.0|'' | |[[hostile-software|hostile]]|2.0.0|'' | ||
| |[[htseq-software|htseq]]|0.9.1|'' | |[[htseq-software|htseq]]|0.9.1|'' | ||
| - | |[[htslib-software|htslib]]|1.17|'' | + | |[[htslib-software|htslib]]|1.22.1|'' |
| |[[hypo-software|hypo]]|1.0.3|'' | |[[hypo-software|hypo]]|1.0.3|'' | ||
| |[[hyphy-software|hyphy]]|2.5.48|'' | |[[hyphy-software|hyphy]]|2.5.48|'' | ||
| Line 184: | Line 189: | ||
| |[[kaiju-software|kaiju]]|1.8.2|'' | |[[kaiju-software|kaiju]]|1.8.2|'' | ||
| |[[kallisto-software|kallisto]]|0.43.0|'' | |[[kallisto-software|kallisto]]|0.43.0|'' | ||
| + | |[[kaptive-software|kaptive]]|3.1.0|'' | ||
| |[[karect-software|karect]]|1.0|'' | |[[karect-software|karect]]|1.0|'' | ||
| |[[kat-software|kat]]|2.3.4|'' | |[[kat-software|kat]]|2.3.4|'' | ||
| + | |[[kleborate-software|kleborate]]|3.2.4|'' | ||
| |[[kma-software|kma]]|1.4.21|'' | |[[kma-software|kma]]|1.4.21|'' | ||
| |[[kmc-software|kmc]]|3.1.1|'' | |[[kmc-software|kmc]]|3.1.1|'' | ||
| Line 257: | Line 264: | ||
| |[[nextclade-software|nextclade]]|2.11.0|'' | |[[nextclade-software|nextclade]]|2.11.0|'' | ||
| |[[nextclip-software|nextclip]]|1.3.1|'' | |[[nextclip-software|nextclip]]|1.3.1|'' | ||
| - | |[[nextflow-software|nextflow]]|24.04 (24.04.2)|'' | + | |[[nextflow-software|nextflow]]|25.04 (25.04.6)|'' |
| |[[ngs-tools-software|ngs-tools]]|3.0.0|'' | |[[ngs-tools-software|ngs-tools]]|3.0.0|'' | ||
| |[[ntcard-software|ntCard]]|1.0.0|'' | |[[ntcard-software|ntCard]]|1.0.0|'' | ||
| Line 336: | Line 343: | ||
| |[[root-software|root]]|6.08.06|'' | |[[root-software|root]]|6.08.06|'' | ||
| |[[rrnaselector-software|rRNASelector]]|1.1|'' | |[[rrnaselector-software|rRNASelector]]|1.1|'' | ||
| - | |[[rsem-software|RSEM]]|1.3.1|'' | + | |[[rsem-software|RSEM]]|1.3.3|'' |
| |[[rseqc-software|rseqc]]|2.6.4|'' | |[[rseqc-software|rseqc]]|2.6.4|'' | ||
| |[[ruby-software|ruby]]|3.1 (3.1.4)|'' | |[[ruby-software|ruby]]|3.1 (3.1.4)|'' | ||
| |[[samclip-software|samclip]]|0.4.0|'' | |[[samclip-software|samclip]]|0.4.0|'' | ||
| - | |[[samtools-software|samtools]]|1.17|'' | + | |[[samtools-software|samtools]]|1.22.1|'' |
| |[[sailfish-software|sailfish]]|0.9.2|'' | |[[sailfish-software|sailfish]]|0.9.2|'' | ||
| |[[salmon-software|salmon]]|1.3.0|'' | |[[salmon-software|salmon]]|1.3.0|'' | ||
| Line 372: | Line 379: | ||
| |[[snpeff-software|snpeff]]|5.1|'' | |[[snpeff-software|snpeff]]|5.1|'' | ||
| |[[snpmeta-software|snpmeta]]|2.0|'' | |[[snpmeta-software|snpmeta]]|2.0|'' | ||
| + | |[[snp-dists-software|snp-dists]]|0.8.2|'' | ||
| |[[snp-pipeline-software|snp-pipeline]]|1.0.1|'' | |[[snp-pipeline-software|snp-pipeline]]|1.0.1|'' | ||
| |[[soapdenovo2-software|SOAPdenovo2]]|git-c4d2f5ee|'' | |[[soapdenovo2-software|SOAPdenovo2]]|git-c4d2f5ee|'' | ||
| Line 379: | Line 387: | ||
| |[[soapdenovo-trans-software|SOAPdenovo-Trans]]|1.03|'' | |[[soapdenovo-trans-software|SOAPdenovo-Trans]]|1.03|'' | ||
| |[[solexaqa-software|SolexaQA++]]|3.1.3|'' | |[[solexaqa-software|SolexaQA++]]|3.1.3|'' | ||
| - | |[[spades-software|spades]]|3.15 (3.15.5)|'' | + | |[[spades-software|spades]]|4.2.0|'' |
| |[[sourmash-software|sourmash]]|1.0|'' | |[[sourmash-software|sourmash]]|1.0|'' | ||
| |[[speedseq-software|speedseq]]|0.1.2|'' | |[[speedseq-software|speedseq]]|0.1.2|'' | ||
list-of-software.1747828358.txt.gz · Last modified: by aorth