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comparison deseq2.xml @ 33:4f497a8a72e8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit 05bc13637dc9f8e523bc72844ff6eb0794f98ad3
author iuc
date Mon, 28 Jan 2019 12:03:36 -0500
parents 13f324f9cdb7
children f98981133ec0
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32:13f324f9cdb7 33:4f497a8a72e8
1 <tool id="deseq2" name="DESeq2" version="2.11.40.4"> 1 <tool id="deseq2" name="DESeq2" version="2.11.40.5">
2 <description>Determines differentially expressed features from count tables</description> 2 <description>Determines differentially expressed features from count tables</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.20.0">bioconductor-deseq2</requirement> 4 <requirement type="package" version="1.20.0">bioconductor-deseq2</requirement>
5 <!-- Optional dependency of tximport, needed to import kallisto results https://github.com/galaxyproject/usegalaxy-playbook/issues/161 --> 5 <!-- Optional dependency of tximport, needed to import kallisto results https://github.com/galaxyproject/usegalaxy-playbook/issues/161 -->
6 <requirement type="package" version="2.24.0">bioconductor-rhdf5</requirement> 6 <requirement type="package" version="2.24.0">bioconductor-rhdf5</requirement>
39 #end if 39 #end if
40 40
41 #import json 41 #import json
42 #import os 42 #import os
43 Rscript '${__tool_directory__}/deseq2.R' 43 Rscript '${__tool_directory__}/deseq2.R'
44 --cores \${GALAXY_SLOTS:-1}
44 -o '$deseq_out' 45 -o '$deseq_out'
45 #if $pdf: 46 #if $pdf:
46 -p '$plots' 47 -p '$plots'
47 #end if 48 #end if
48 #if $normCounts: 49 #if $normCounts: