list-of-software
Differences
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list-of-software [2020/02/05 15:54] – aorth | list-of-software [2020/04/07 08:32] – 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]]|2.6.0+|'' | + | |[[blast-software|blast]]|2.10.0+|'' |
|[[blobtools-software|blobtools]]|0.9.19.3|'' | |[[blobtools-software|blobtools]]|0.9.19.3|'' | ||
|blat|06-Aug-2013|'' | |blat|06-Aug-2013|'' | ||
Line 54: | Line 54: | ||
|censor|4.2.28|'' | |censor|4.2.28|'' | ||
|[[changeo-software|changeo]]|0.3.9|'' | |[[changeo-software|changeo]]|0.3.9|'' | ||
+ | |[[checkm-software|checkm]]|1.1.2|'' | ||
|[[circos-software|circos]]|0.67|'' | |[[circos-software|circos]]|0.67|'' | ||
|[[clonalframe-software|clonalframe]]|1.2|'' | |[[clonalframe-software|clonalframe]]|1.2|'' | ||
Line 68: | Line 69: | ||
|dendroscope|2.7.4|'' | |dendroscope|2.7.4|'' | ||
|[[diamond-software|diamond]]|0.9.9|'' | |[[diamond-software|diamond]]|0.9.9|'' | ||
+ | |[[drep-software|drep]]|2.5.4|'' | ||
|[[ea-utils-software|ea-utils]]|1.04.807|'' | |[[ea-utils-software|ea-utils]]|1.04.807|'' | ||
|[[edirect-software|edirect]]| 7.80 | '' | |[[edirect-software|edirect]]| 7.80 | '' | ||
Line 88: | Line 90: | ||
|[[flye-software|flye]]|2.4.2|'' | |[[flye-software|flye]]|2.4.2|'' | ||
|frappe|1.1|'' | |frappe|1.1|'' | ||
- | |[[fraggenescan-software|FragGeneScan ]]|1.19|'' | + | |[[fraggenescan-software|FragGeneScan ]]|1.30|'' |
|[[freebayes-software|FreeBayes ]]|1.0.2|'' | |[[freebayes-software|FreeBayes ]]|1.0.2|'' | ||
|[[gassflow-software|GassFlow ]]|1.0|'' | |[[gassflow-software|GassFlow ]]|1.0|'' | ||
Line 108: | Line 110: | ||
|hapmix|2.0|'' | |hapmix|2.0|'' | ||
|[[hdf5-software|hdf5]]|1.8.19|'' | |[[hdf5-software|hdf5]]|1.8.19|'' | ||
- | |[[hmmer-software|hmmer]]|3.1b2|'' | + | |[[hmmer-software|hmmer]]|3.3|'' |
|[[hpg-variant-software|hpg-variant]]|1.0|'' | |[[hpg-variant-software|hpg-variant]]|1.0|'' | ||
|[[hisat2-software|hisat2]]|2.1.0|'' | |[[hisat2-software|hisat2]]|2.1.0|'' | ||
|[[htseq-software|htseq]]|0.9.1|'' | |[[htseq-software|htseq]]|0.9.1|'' | ||
|[[htslib-software|htslib]]|1.9|'' | |[[htslib-software|htslib]]|1.9|'' | ||
+ | |[[idba-software|idba]]|1.1.2|'' | ||
|[[igblast-software|igblast]]|1.6.0|'' | |[[igblast-software|igblast]]|1.6.0|'' | ||
|[[igrec-software|igrec]]|3.0.0|'' | |[[igrec-software|igrec]]|3.0.0|'' | ||
+ | |[[igsimulator-software|igsimulator]]|git-c3778b74|'' | ||
|[[igv-software|igv]]|2.4.5|'' | |[[igv-software|igv]]|2.4.5|'' | ||
|[[igvtools-software|igvtools]]|2.3.98|'' | |[[igvtools-software|igvtools]]|2.3.98|'' | ||
Line 146: | Line 150: | ||
|[[masurca-software|masurca]]|3.3.1|'' | |[[masurca-software|masurca]]|3.3.1|'' | ||
|mauve|2.3.1|'' | |mauve|2.3.1|'' | ||
+ | |[[maxbin2-software|maxbin2]]|2.2.7|'' | ||
|maximus|0.2|'' | |maximus|0.2|'' | ||
|[[mcl-software|mcl]]|14-137|'' | |[[mcl-software|mcl]]|14-137|'' | ||
Line 205: | Line 210: | ||
|[[plink-software|plink]]|2.00-alpha|'' | |[[plink-software|plink]]|2.00-alpha|'' | ||
|[[polyphen-software|polyphen]]|2.2.2|'' | |[[polyphen-software|polyphen]]|2.2.2|'' | ||
+ | |[[porechop-software|porechop]]|0.2.4|'' | ||
+ | |[[pplacer-software|pplacer]]|1.1.alpha19|'' | ||
|[[prank-software|prank]]|170427|'' | |[[prank-software|prank]]|170427|'' | ||
- | |[[presto-software|presto]]|0.5.3|'' | + | |[[presto-software|presto]]|0.5.13|'' |
|primer3|2.3.6|'' | |primer3|2.3.6|'' | ||
+ | |[[prodigal-software|prodigal]]|2.6.3|'' | ||
|[[prokka-software|prokka]]|1.11|'' | |[[prokka-software|prokka]]|1.11|'' | ||
|[[provean-software|provean]]|1.1.5|'' | |[[provean-software|provean]]|1.1.5|'' | ||
Line 214: | Line 222: | ||
|[[qiime-software|qiime]]|1.9.1|'' | |[[qiime-software|qiime]]|1.9.1|'' | ||
|[[qiime2-software|qiime2]]|2019.10|'' | |[[qiime2-software|qiime2]]|2019.10|'' | ||
- | |[[quast-software|quast]]|4.5|'' | + | |[[quast-software|quast]]|5.0.2|'' |
|[[quickmerge-software|quickmerge]]|0.3|'' | |[[quickmerge-software|quickmerge]]|0.3|'' | ||
|[[quorum-software|Quorum]]|1.1.1|'' | |[[quorum-software|Quorum]]|1.1.1|'' | ||
Line 226: | Line 234: | ||
|[[rdp-classifier-software|RDP Classifier]]|2.11|'' | |[[rdp-classifier-software|RDP Classifier]]|2.11|'' | ||
|repeatmasker|4.0.5|'' | |repeatmasker|4.0.5|'' | ||
+ | |[[repseqio-software|repseqio]]|1.3.3|'' | ||
|[[root-software|root]]|6.08.06|'' | |[[root-software|root]]|6.08.06|'' | ||
|[[rrnaselector-software|rRNASelector]]|1.1|'' | |[[rrnaselector-software|rRNASelector]]|1.1|'' | ||
Line 242: | Line 251: | ||
|[[seqtk-software|seqtk]]|1.3|'' | |[[seqtk-software|seqtk]]|1.3|'' | ||
|[[shannon-software|shannon]]|0.0.2|'' | |[[shannon-software|shannon]]|0.0.2|'' | ||
- | |[[shasta-software|shasta]]|0.3.0|'' | + | |[[shasta-software|shasta]]|0.4.0|'' |
|[[sickle-software|sickle]]|1.33|'' | |[[sickle-software|sickle]]|1.33|'' | ||
|[[sift-software|sift]]|4.0.3b|'' | |[[sift-software|sift]]|4.0.3b|'' | ||
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|[[whatshap-software|whatshap]]|0.16|'' | |[[whatshap-software|whatshap]]|0.16|'' | ||
|[[wise-software|wise]]|2.4.1|'' | |[[wise-software|wise]]|2.4.1|'' | ||
+ | |[[wombat-software|wombat]]|2020-02-07|'' | ||
|[[wtdbg2-software|wtdbg2]]|2.4|'' | |[[wtdbg2-software|wtdbg2]]|2.4|'' | ||
The source code for all environment modules can be found in [[https:// | The source code for all environment modules can be found in [[https:// |
list-of-software.txt · Last modified: 2024/06/19 11:50 by aorth