list-of-software
Differences
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| Both sides previous revisionPrevious revisionNext revision | Previous revision | ||
| list-of-software [2023/09/13 06:06] – aorth | list-of-software [2024/05/08 05:38] (current) – aorth | ||
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| |[[artic-software|artic]]|1.2.3|'' | |[[artic-software|artic]]|1.2.3|'' | ||
| |[[artic-tools-software|artic-tools]]|0.3.1|'' | |[[artic-tools-software|artic-tools]]|0.3.1|'' | ||
| + | |[[aspera-cli-software|aspera-cli]]|4.15.0|'' | ||
| |[[augustus-software|augustus]]|3.3|'' | |[[augustus-software|augustus]]|3.3|'' | ||
| |[[awscli-software|awscli]]|2.4.0|'' | |[[awscli-software|awscli]]|2.4.0|'' | ||
| Line 44: | Line 45: | ||
| |[[bitseq-software|bitseq]]|0.7.5|'' | |[[bitseq-software|bitseq]]|0.7.5|'' | ||
| |[[blasr-software|blasr]]|smrtanalysis-4.0.0|'' | |[[blasr-software|blasr]]|smrtanalysis-4.0.0|'' | ||
| - | |[[blast-software|blast]]|2.12.0+|'' | + | |[[blast-software|blast]]|2.14.1+|'' |
| |[[blobtools-software|blobtools]]|0.9.19.3|'' | |[[blobtools-software|blobtools]]|0.9.19.3|'' | ||
| |[[blat-software|blat]]|37x1|'' | |[[blat-software|blat]]|37x1|'' | ||
| Line 60: | Line 61: | ||
| |[[cd-hit-software|cd-hit]]|4.8.1|'' | |[[cd-hit-software|cd-hit]]|4.8.1|'' | ||
| |[[cegma-software|cegma]]|v2.5|'' | |[[cegma-software|cegma]]|v2.5|'' | ||
| + | |[[cgmlst-dists-software|cgmlst-dists]]|0.4.0|'' | ||
| |celera-wgs|6.1|'' | |celera-wgs|6.1|'' | ||
| |censor|4.2.28|'' | |censor|4.2.28|'' | ||
| Line 65: | Line 67: | ||
| |[[changeo-software|changeo]]|1.2.0|'' | |[[changeo-software|changeo]]|1.2.0|'' | ||
| |[[checkm-software|checkm]]|1.1.2|'' | |[[checkm-software|checkm]]|1.1.2|'' | ||
| - | |[[chewbbaca-software|chewbbaca]]|3.2.0|'' | + | |[[chewbbaca-software|chewbbaca]]|git-87102063|'' |
| |[[circos-software|circos]]|0.69-9|'' | |[[circos-software|circos]]|0.69-9|'' | ||
| |[[clonalframe-software|clonalframe]]|1.2|'' | |[[clonalframe-software|clonalframe]]|1.2|'' | ||
| |[[clonalframeml-software|clonalframeml]]|1.0|'' | |[[clonalframeml-software|clonalframeml]]|1.0|'' | ||
| - | |[[clustalo-software|clustalo]]|1.2.3|'' | ||
| |clustalw|2.1|'' | |clustalw|2.1|'' | ||
| |[[cnvnator-software|CNVnator]]|0.3.3|'' | |[[cnvnator-software|CNVnator]]|0.3.3|'' | ||
| Line 83: | Line 84: | ||
| |[[diamond-software|diamond]]|2.0.14|'' | |[[diamond-software|diamond]]|2.0.14|'' | ||
| |[[disty-software|disty]]|0.1.0|'' | |[[disty-software|disty]]|0.1.0|'' | ||
| - | |[[dorado-software|dorado]]|0.3.4|'' | + | |[[dorado-software|dorado]]|0.5.0|'' |
| |[[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|'' | ||
| Line 162: | Line 163: | ||
| |[[igvtools-software|igvtools]]|2.3.98|'' | |[[igvtools-software|igvtools]]|2.3.98|'' | ||
| |[[infernal-software|infernal]]|1.1.2|'' | |[[infernal-software|infernal]]|1.1.2|'' | ||
| + | |[[integron-finder-software|integron-finder]]|2.0.2|'' | ||
| |[[interproscan-software|interproscan]]|5.13|'' | |[[interproscan-software|interproscan]]|5.13|'' | ||
| |i-tasser|latest|'' | |i-tasser|latest|'' | ||
| Line 227: | Line 229: | ||
| |[[mothur-krona-software|mothur-krona]]|git-87499a0|'' | |[[mothur-krona-software|mothur-krona]]|git-87499a0|'' | ||
| |mpiblast|1.6.0|'' | |mpiblast|1.6.0|'' | ||
| - | |[[mrbays-software|mrbayes]]|3.2.7a|'' | + | |[[mrbayes-software|mrbayes]]|3.2.7a|'' |
| |[[multiqc-software|multiqc]]|1.12|'' | |[[multiqc-software|multiqc]]|1.12|'' | ||
| |[[muscle-software|muscle]]|3.8.1551|'' | |[[muscle-software|muscle]]|3.8.1551|'' | ||
| |[[mummer-software|mummer]]|4.0.0rc1|'' | |[[mummer-software|mummer]]|4.0.0rc1|'' | ||
| |[[nanopolish-software|nanopolish]]|0.14.0|'' | |[[nanopolish-software|nanopolish]]|0.14.0|'' | ||
| + | |[[nanoqc-software|nanoqc]]|git-a7bcbdce|'' | ||
| |[[netmhcpan-software|netmhcpan]]|2.8|'' | |[[netmhcpan-software|netmhcpan]]|2.8|'' | ||
| |[[nextalign-software|nextalign]]|1.11.0|'' | |[[nextalign-software|nextalign]]|1.11.0|'' | ||
| |[[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]]|23.04 (23.04.2)|'' | + | |[[nextflow-software|nextflow]]|23.10 (23.10.0)|'' |
| |[[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 242: | Line 245: | ||
| |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|'' | |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|'' | ||
| |[[nQuire-software|nQuire]]|git-a990a88e|'' | |[[nQuire-software|nQuire]]|git-a990a88e|'' | ||
| - | |[[nvtop-software|nvtop]]|2.0.2|'' | ||
| |novacraft|3.02.07|'' | |novacraft|3.02.07|'' | ||
| |[[oases-software|oases]]|0.2.08|'' | |[[oases-software|oases]]|0.2.08|'' | ||
| Line 272: | Line 274: | ||
| |[[platanus-software|platanus]]|1.2.1|'' | |[[platanus-software|platanus]]|1.2.1|'' | ||
| |[[plink-software|plink]]|2.00-alpha|'' | |[[plink-software|plink]]|2.00-alpha|'' | ||
| + | |[[pod5-software|pod5]]|0.3.2|'' | ||
| |[[polyphen-software|polyphen]]|2.2.2|'' | |[[polyphen-software|polyphen]]|2.2.2|'' | ||
| |[[poplddecay-software|poplddecay]]|3.41|'' | |[[poplddecay-software|poplddecay]]|3.41|'' | ||
| Line 306: | Line 309: | ||
| |[[rgi-software|rgi]]|6.0.2|'' | |[[rgi-software|rgi]]|6.0.2|'' | ||
| |[[rmblast-software|rmblast]]|2.11.0|'' | |[[rmblast-software|rmblast]]|2.11.0|'' | ||
| + | |[[roary-software|roary]]|3.13.0|'' | ||
| |[[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]]|1.3.1|'' | ||
| |[[rseqc-software|rseqc]]|2.6.4|'' | |[[rseqc-software|rseqc]]|2.6.4|'' | ||
| - | |[[ruby-software|ruby]]|2.2.3|'' | + | |[[ruby-software|ruby]]|3.1 (3.1.4)|'' |
| |[[samtools-software|samtools]]|1.15.1|'' | |[[samtools-software|samtools]]|1.15.1|'' | ||
| |[[sailfish-software|sailfish]]|0.9.2|'' | |[[sailfish-software|sailfish]]|0.9.2|'' | ||
| Line 364: | Line 368: | ||
| |[[structure-software|structure]]|2.3.4|'' | |[[structure-software|structure]]|2.3.4|'' | ||
| |[[stringtie-software|stringtie]]|1.3.4d|'' | |[[stringtie-software|stringtie]]|1.3.4d|'' | ||
| - | |[[stringtie2-software|stringtie2]]|2.0.1|'' | + | |[[stringtie2-software|stringtie2]]|2.2.1|'' |
| |[[subread-software|subread]]|1.6.2|'' | |[[subread-software|subread]]|1.6.2|'' | ||
| |svmlight|V6.02|'' | |svmlight|V6.02|'' | ||
| Line 376: | Line 380: | ||
| |[[transdecoder-software|TransDecoder]]|2.0.1|'' | |[[transdecoder-software|TransDecoder]]|2.0.1|'' | ||
| |[[transrate-software|Transrate]]|1.0.3|'' | |[[transrate-software|Transrate]]|1.0.3|'' | ||
| + | |[[treetime-software|treetime]]|0.11.3|'' | ||
| |[[trf-software|trf]]|4.0.9|'' | |[[trf-software|trf]]|4.0.9|'' | ||
| |[[trimgalore-software|trimgalore]]|0.6.7|'' | |[[trimgalore-software|trimgalore]]|0.6.7|'' | ||
list-of-software.1694585192.txt.gz · Last modified: 2023/09/13 06:06 by aorth