Mercurial > repos > iuc > deseq2
comparison deseq2.xml @ 21:a6fc9228e1a0 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/deseq2 commit 05bc13637dc9f8e523bc72844ff6eb0794f98ad3
| author | iuc |
|---|---|
| date | Mon, 28 Jan 2019 12:04:08 -0500 |
| parents | 89d26b11d452 |
| children | e5c8afac22a7 |
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| 20:89d26b11d452 | 21:a6fc9228e1a0 |
|---|---|
| 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: |