ILRI Research Computing

User Tools

Site Tools

You are here: start » list-of-software
list-of-software

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Both sides previous revisionPrevious revision
Next revision		Previous revision
Next revisionBoth sides next revision
list-of-software [2019/10/25 12:35] – aorthlist-of-software [2020/02/27 11:13] – aorth
Line 22: Line 22:
 |[[artemis-software|artemis]]|16.0.0|''module load act/16.0.0''| | |[[artemis-software|artemis]]|16.0.0|''module load act/16.0.0''| |
 |[[augustus-software|augustus]]|3.3|''module load augustus/3.3''| | |[[augustus-software|augustus]]|3.3|''module load augustus/3.3''| |
 +|[[awscli-software|awscli]]|1.17.9|''module load awscli/1.17.9''| |
 |[[bam-readcount-software|bam-readcount]]|0.8.0|''module load bam-readcount/0.8.0''| | |[[bam-readcount-software|bam-readcount]]|0.8.0|''module load bam-readcount/0.8.0''| |
 |[[bamtools-software|bamtools]]|2.5.1|''module load bamtools/2.5.1''| | |[[bamtools-software|bamtools]]|2.5.1|''module load bamtools/2.5.1''| |
Line 153: Line 154:
 |[[megax-software|megax]]|10.0.5|''module load megax/10.0.5''| | |[[megax-software|megax]]|10.0.5|''module load megax/10.0.5''| |
 |[[metabat-software|metabat]]|2.12.1|''module load metabat/2.12.1''| | |[[metabat-software|metabat]]|2.12.1|''module load metabat/2.12.1''| |
 +|[[metaphlan2-software|metaphlan2]]|2.9.5|''module load metaphlan2/2.9.5''| |
 |[[metis-software|metis]]|5.1.0|''module load metis/5.1.0''| | |[[metis-software|metis]]|5.1.0|''module load metis/5.1.0''| |
 |[[migec-software|migec]]|1.2.4a|''module load migec/1.2.4a''| | |[[migec-software|migec]]|1.2.4a|''module load migec/1.2.4a''| |
Line 161: Line 163:
 |[[mira-software#v4.0.2|mira ]]|4.0.2|''module load mira/4.0.2''| | |[[mira-software#v4.0.2|mira ]]|4.0.2|''module load mira/4.0.2''| |
 |[[mitools-software|mitools]]|1.4|''module load mitools/1.4''| | |[[mitools-software|mitools]]|1.4|''module load mitools/1.4''| |
-|[[mixcr-software|mixcr]]|2.0.1|''module load mixcr/2.0.1''| |+|[[mixcr-software|mixcr]]|3.0.11|''module load mixcr/3.0.11''| |
 |mkatari-ilri|latest|''module load mkatari-ilri/latest''| | |mkatari-ilri|latest|''module load mkatari-ilri/latest''| |
 |[[modeller-software|modeller]]|9.17|''module load modeller/9.17''| | |[[modeller-software|modeller]]|9.17|''module load modeller/9.17''| |
Line 174: Line 176:
 |[[netmhcpan-software|netmhcpan]]|2.8|''module load netmhcpan/2.8''| | |[[netmhcpan-software|netmhcpan]]|2.8|''module load netmhcpan/2.8''| |
 |[[nextclip-software|nextclip]]|1.3.1|''module load nextclip/1.3.1''| | |[[nextclip-software|nextclip]]|1.3.1|''module load nextclip/1.3.1''| |
 +|[[nextflow-software|nextflow]]|19.10.0|''module load nextflow/19.10.0''| |
 |[[ntcard-software|ntCard]]|1.0.0|''module load ntCard/1.0.0''| | |[[ntcard-software|ntCard]]|1.0.0|''module load ntCard/1.0.0''| |
 |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|''module load ngsqctoolkit/2.3.3''| | |[[ngsqctoolkit-software|ngsqctoolkit]]|2.3.3|''module load ngsqctoolkit/2.3.3''| |
 |novacraft|3.02.07|''module load novacraft/3.02.07''| | |novacraft|3.02.07|''module load novacraft/3.02.07''| |
 |[[oases-software|oases]]|0.2.08|''module load oases/0.2.08''| | |[[oases-software|oases]]|0.2.08|''module load oases/0.2.08''| |
-|[[ocaml-software#v4.02.1|ocaml ]]|4.02.1|''module load ocaml/4.02.1''| | +|[[ocaml-software#v4.02.1|ocaml]]|4.02.1|''module load ocaml/4.02.1''| | 
-|[[opam-software#v1.2.0|opam ]]|1.2.0|''module load opam/1.2.0''| |+|[[opam-software#v1.2.0|opam]]|1.2.0|''module load opam/1.2.0''| |
 |orthomcl|2.0.3|''module load orthomcl/2.0.3''| | |orthomcl|2.0.3|''module load orthomcl/2.0.3''| |
 +|[[orp-software|Oyster River Protocol]]|2.2.8|''module load orp/2.2.8''| |
 |[[pagan-software|pagan]]|0.61|''module load pagan/0.61''| | |[[pagan-software|pagan]]|0.61|''module load pagan/0.61''| |
 |[[pairfq-software|pairfq]]|0.14.4|''module load pairfq/0.14.4''| | |[[pairfq-software|pairfq]]|0.14.4|''module load pairfq/0.14.4''| |
Line 199: Line 203:
 |[[pilon-software|pilon]]|1.23|''module load pilon/1.23''| | |[[pilon-software|pilon]]|1.23|''module load pilon/1.23''| |
 |[[platanus-software|platanus]]|1.2.1|''module load platanus/1.2.1''| | |[[platanus-software|platanus]]|1.2.1|''module load platanus/1.2.1''| |
-|[[plink-software|plink]]|1.9|''module load plink/1.9''| |+|[[plink-software|plink]]|2.00-alpha|''module load plink/2.00-alpha''| |
 |[[polyphen-software|polyphen]]|2.2.2|''module load polyphen/2.2.2''| | |[[polyphen-software|polyphen]]|2.2.2|''module load polyphen/2.2.2''| |
 +|[[porechop-software|porechop]]|0.2.4|''module load porechop/0.2.4''| |
 |[[prank-software|prank]]|170427|''module load prank/170427''| | |[[prank-software|prank]]|170427|''module load prank/170427''| |
 |[[presto-software|presto]]|0.5.3|''module load presto/0.5.3''| | |[[presto-software|presto]]|0.5.3|''module load presto/0.5.3''| |
Line 209: Line 214:
 |qdd|3_beta|''module load qdd/3_beta''| | |qdd|3_beta|''module load qdd/3_beta''| |
 |[[qiime-software|qiime]]|1.9.1|''module load qiime/1.9.1''| | |[[qiime-software|qiime]]|1.9.1|''module load qiime/1.9.1''| |
-|[[qiime2-software|qiime2]]|2019.7|''module load qiime2/2019.7''| |+|[[qiime2-software|qiime2]]|2019.10|''module load qiime2/2019.10''| |
 |[[quast-software|quast]]|4.5|''module load quast/4.5''| | |[[quast-software|quast]]|4.5|''module load quast/4.5''| |
 |[[quickmerge-software|quickmerge]]|0.3|''module load quickmerge/0.3''| | |[[quickmerge-software|quickmerge]]|0.3|''module load quickmerge/0.3''| |
Line 234: Line 239:
 |[[seroba-software|seroba]]|1.0.0|''module load seroba/1.0.0''| | |[[seroba-software|seroba]]|1.0.0|''module load seroba/1.0.0''| |
 |seq_crumbs|0.1.8|''module load seq_crumbs/0.1.8''| | |seq_crumbs|0.1.8|''module load seq_crumbs/0.1.8''| |
-|[[seqkit-software|seqkit]]|0.7.2|''module load seqkit/0.7.2''| |+|[[seqkit-software|seqkit]]|0.11.0|''module load seqkit/0.11.0''| |
 |[[seqqs-software|seqqs]]|git-3d053750|''module load seqqs/git-3d053750''| | |[[seqqs-software|seqqs]]|git-3d053750|''module load seqqs/git-3d053750''| |
 |[[seqtk-software|seqtk]]|1.3|''module load seqtk/1.3''| | |[[seqtk-software|seqtk]]|1.3|''module load seqtk/1.3''| |
 |[[shannon-software|shannon]]|0.0.2|''module load shannon/0.0.2''| | |[[shannon-software|shannon]]|0.0.2|''module load shannon/0.0.2''| |
-|[[shasta-software|shasta]]|0.2.0|''module load shasta/0.2.0''| |+|[[shasta-software|shasta]]|0.3.0|''module load shasta/0.3.0''| |
 |[[sickle-software|sickle]]|1.33|''module load sickle/1.33''| | |[[sickle-software|sickle]]|1.33|''module load sickle/1.33''| |
 |[[sift-software|sift]]|4.0.3b|''module load sift/4.0.3b''| | |[[sift-software|sift]]|4.0.3b|''module load sift/4.0.3b''| |
Line 260: Line 265:
 |splitstree|4.11.3|''module load splitstree/4.11.3''| | |splitstree|4.11.3|''module load splitstree/4.11.3''| |
 |spread|1.0.6|''module load spread/1.0.6''| | |spread|1.0.6|''module load spread/1.0.6''| |
-|[[sratoolkit-software|sratoolkit]]|2.8.2|''module load sratoolkit/2.8.2''| |+|[[sratoolkit-software|sratoolkit]]|2.10.0|''module load sratoolkit/2.10.0''| |
 |[[sspace-software|sspace]]|3.0|''module load sspace/3.0''| | |[[sspace-software|sspace]]|3.0|''module load sspace/3.0''| |
 |[[sspace-longread-software|sspace-longread]]|1.1|''module load sspace-longread/1.1''| | |[[sspace-longread-software|sspace-longread]]|1.1|''module load sspace-longread/1.1''| |
Line 298: Line 303:
 |[[whatshap-software|whatshap]]|0.16|''module load whatshap/0.16''| | |[[whatshap-software|whatshap]]|0.16|''module load whatshap/0.16''| |
 |[[wise-software|wise]]|2.4.1|''module load wise/2.4.1''| | |[[wise-software|wise]]|2.4.1|''module load wise/2.4.1''| |
 +|[[wombat-software|wombat]]|2020-02-07|''module load wombat/2020-02-07''| |
 |[[wtdbg2-software|wtdbg2]]|2.4|''module load wtdbg2/2.4''| | |[[wtdbg2-software|wtdbg2]]|2.4|''module load wtdbg2/2.4''| |
  
 The source code for all environment modules can be found in [[https://github.com/ilri/hpc-environment-modules|ILRI's GitHub repository]]. The source code for all environment modules can be found in [[https://github.com/ilri/hpc-environment-modules|ILRI's GitHub repository]].
list-of-software.txt · Last modified: 2024/06/19 11:50 by aorth