Mercurial > repos > yufei-luo > s_mart
comparison SMART/DiffExpAnal/deseq.xml @ 31:0ab839023fe4
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| author | m-zytnicki |
|---|---|
| date | Tue, 30 Apr 2013 14:33:21 -0400 |
| parents | 94ab73e8a190 |
| children |
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| 30:5677346472b5 | 31:0ab839023fe4 |
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| 1 <tool id="DESEQ" name="DESEQ for differential expression analysis"> | |
| 2 <description>Differential expression analysis for reads count data</description> | |
| 3 <command interpreter="bash"> deseq.sh $inputFile $header $withOutReplicates $outHTML $outHTML.files_path $outComplete $outUP $outDown 2> $log </command> | |
| 4 | |
| 5 <inputs> | |
| 6 <param name="inputFile" type="data" label="Input File list" format="txt"/> | |
| 7 <param name="header" type="boolean" truevalue="1" falsevalue="0" checked="false" label="If there is a header for your count files, please choose this case."/> | |
| 8 <param name="withOutReplicates" type="boolean" truevalue="1" falsevalue="0" checked="false" label="If your data has not replicates, please choose this case."/> | |
| 9 | |
| 10 </inputs> | |
| 11 | |
| 12 <outputs> | |
| 13 <data format="HTML" name="outHTML" label="[DESEQ] Output HTML File" help="This output file shows all results images by DESeq analysis"/> | |
| 14 <data format="tabular" name="outComplete" label="[DESEQ] Output complete File"/> | |
| 15 <data format="tabular" name="outUP" label="[DESEQ] Output up File" help="This output file shows the genes of group1 which are overexpressed than those of group2"/> | |
| 16 <data format="tabular" name="outDown" label="[DESEQ] Output down File" help="This output file shows the genes of group1 which are less expressed than those of group2"/> | |
| 17 <data format="txt" name="log" label="[DESEQ] Output log File"/> | |
| 18 </outputs> | |
| 19 | |
| 20 <help> | |
| 21 </help> | |
| 22 </tool> |