list-of-software
Differences
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list-of-software [2019/12/08 14:02] – aorth | list-of-software [2020/03/15 11:21] – aorth | ||
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|[[artemis-software|artemis]]|16.0.0|'' | |[[artemis-software|artemis]]|16.0.0|'' | ||
|[[augustus-software|augustus]]|3.3|'' | |[[augustus-software|augustus]]|3.3|'' | ||
+ | |[[awscli-software|awscli]]|1.17.9|'' | ||
|[[bam-readcount-software|bam-readcount]]|0.8.0|'' | |[[bam-readcount-software|bam-readcount]]|0.8.0|'' | ||
|[[bamtools-software|bamtools]]|2.5.1|'' | |[[bamtools-software|bamtools]]|2.5.1|'' | ||
Line 53: | 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 67: | 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 87: | 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 112: | Line 115: | ||
|[[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|'' | ||
Line 145: | Line 149: | ||
|[[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 153: | Line 158: | ||
|[[megax-software|megax]]|10.0.5|'' | |[[megax-software|megax]]|10.0.5|'' | ||
|[[metabat-software|metabat]]|2.12.1|'' | |[[metabat-software|metabat]]|2.12.1|'' | ||
+ | |[[metaphlan2-software|metaphlan2]]|2.9.5|'' | ||
|[[metis-software|metis]]|5.1.0|'' | |[[metis-software|metis]]|5.1.0|'' | ||
|[[migec-software|migec]]|1.2.4a|'' | |[[migec-software|migec]]|1.2.4a|'' | ||
Line 174: | Line 180: | ||
|[[netmhcpan-software|netmhcpan]]|2.8|'' | |[[netmhcpan-software|netmhcpan]]|2.8|'' | ||
|[[nextclip-software|nextclip]]|1.3.1|'' | |[[nextclip-software|nextclip]]|1.3.1|'' | ||
+ | |[[nextflow-software|nextflow]]|19.10.0|'' | ||
|[[ntcard-software|ntCard]]|1.0.0|'' | |[[ntcard-software|ntCard]]|1.0.0|'' | ||
|[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|'' | |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|'' | ||
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|[[pilon-software|pilon]]|1.23|'' | |[[pilon-software|pilon]]|1.23|'' | ||
|[[platanus-software|platanus]]|1.2.1|'' | |[[platanus-software|platanus]]|1.2.1|'' | ||
- | |[[plink-software|plink]]|1.9|'' | + | |[[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]]|0.5.3|'' | ||
|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 210: | Line 220: | ||
|qdd|3_beta|'' | |qdd|3_beta|'' | ||
|[[qiime-software|qiime]]|1.9.1|'' | |[[qiime-software|qiime]]|1.9.1|'' | ||
- | |[[qiime2-software|qiime2]]|2019.7|'' | + | |[[qiime2-software|qiime2]]|2019.10|'' |
|[[quast-software|quast]]|4.5|'' | |[[quast-software|quast]]|4.5|'' | ||
|[[quickmerge-software|quickmerge]]|0.3|'' | |[[quickmerge-software|quickmerge]]|0.3|'' | ||
Line 239: | Line 249: | ||
|[[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