list-of-software
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list-of-software [2023/07/19 08:37] – aorth | list-of-software [2023/11/08 11:45] – aorth | ||
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|[[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|'' | ||
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|[[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 66: | ||
|[[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]]|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 81: | Line 82: | ||
|dendroscope|2.7.4|'' | |dendroscope|2.7.4|'' | ||
|[[diamond-software|diamond]]|2.0.14|'' | |[[diamond-software|diamond]]|2.0.14|'' | ||
+ | |[[disty-software|disty]]|0.1.0|'' | ||
+ | |[[dorado-software|dorado]]|0.3.4|'' | ||
|[[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 102: | Line 105: | ||
|[[fasttree-software|fasttree]]|2.1.11|'' | |[[fasttree-software|fasttree]]|2.1.11|'' | ||
|[[fastx-toolkit-software|fastx_toolkit]]|0.0.13|'' | |[[fastx-toolkit-software|fastx_toolkit]]|0.0.13|'' | ||
+ | |[[figaro-software|figaro]]|git-337aa9|'' | ||
|figtree|1.4.0|'' | |figtree|1.4.0|'' | ||
|[[flapjack-software|flapjack ]]|1.18.04.23-beta|'' | |[[flapjack-software|flapjack ]]|1.18.04.23-beta|'' | ||
Line 158: | Line 162: | ||
|[[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 185: | Line 190: | ||
|[[ltr_retriever-software|ltr_retriever]]|2.9.0|'' | |[[ltr_retriever-software|ltr_retriever]]|2.9.0|'' | ||
|lucy|1.19p|'' | |lucy|1.19p|'' | ||
- | |[[mafft-software|mafft]]|7.475|'' | + | |[[mafft-software|mafft]]|7.505|'' |
|[[maker-software|maker]]|3.01.03|'' | |[[maker-software|maker]]|3.01.03|'' | ||
|[[mapsplice-software|mapsplice]]|2.2.0|'' | |[[mapsplice-software|mapsplice]]|2.2.0|'' | ||
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|[[mothur-krona-software|mothur-krona]]|git-87499a0|'' | |[[mothur-krona-software|mothur-krona]]|git-87499a0|'' | ||
|mpiblast|1.6.0|'' | |mpiblast|1.6.0|'' | ||
- | |mrbayes|3.2.2|'' | + | |[[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|'' | ||
Line 232: | Line 237: | ||
|[[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]]|22.10 (22.10.8)|'' | + | |[[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 238: | Line 243: | ||
|[[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 249: | Line 253: | ||
|[[pairfq-software|pairfq]]|0.14.4|'' | |[[pairfq-software|pairfq]]|0.14.4|'' | ||
|[[paml-software|paml]]|4.9a|'' | |[[paml-software|paml]]|4.9a|'' | ||
+ | |[[panaroo-software|panaroo]]|1.3.3|'' | ||
|[[pandaseq-software|pandaseq]]|2.8.1|'' | |[[pandaseq-software|pandaseq]]|2.8.1|'' | ||
|[[pasta-software|pasta]]|d939adb2|'' | |[[pasta-software|pasta]]|d939adb2|'' | ||
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|[[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|'' | ||
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|[[sra-tools-software|sra-tools]]|3.0.0|'' | |[[sra-tools-software|sra-tools]]|3.0.0|'' | ||
|[[srprism-software|srprism]]|3.1.2|'' | |[[srprism-software|srprism]]|3.1.2|'' | ||
+ | |[[srst2-software|srst2]]|git-73f885f5|'' | ||
|[[sspace-software|sspace]]|3.0|'' | |[[sspace-software|sspace]]|3.0|'' | ||
|[[sspace-longread-software|sspace-longread]]|1.1|'' | |[[sspace-longread-software|sspace-longread]]|1.1|'' |
list-of-software.txt · Last modified: 2024/06/19 11:50 by aorth