Mercurial > repos > lecorguille > anova
comparison abims_anova.xml @ 7:bcd05315efc5 draft
planemo upload commit 0278da78e2822e80025c39b1bc1cd71bc4b0860f
| author | lecorguille |
|---|---|
| date | Mon, 04 Apr 2016 08:46:20 -0400 |
| parents | 7dacba909bb6 |
| children |
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| 6:7dacba909bb6 | 7:bcd05315efc5 |
|---|---|
| 9 | 9 |
| 10 <stdio> | 10 <stdio> |
| 11 <exit_code range="1:" level="fatal" /> | 11 <exit_code range="1:" level="fatal" /> |
| 12 </stdio> | 12 </stdio> |
| 13 | 13 |
| 14 <command interpreter="Rscript"><![CDATA[ | 14 <command interpreter="Rscript"> |
| 15 abims_anova.r file "$input" sampleinfo "$sampleinfo" mode "$mode" | 15 abims_anova.r file "$input" sampleinfo "$sampleinfo" mode "$mode" |
| 16 condition "c('$condition_1' | 16 condition "c('$condition_1' |
| 17 #for $i, $s in enumerate( $conditions ) | 17 #for $i, $s in enumerate( $conditions ) |
| 18 ,'${s.condition}' | 18 ,'${s.condition}' |
| 19 #end for | 19 #end for |
| 20 )" | 20 )" |
| 21 interaction $interaction method $method threshold $threshold selection_method $selection_method sep "$sep" dec "$dec" outputdatapvalue $dataMatrixPValue outputdatafiltered $dataMatrixFiltered | 21 interaction $interaction method $method threshold $threshold selection_method $selection_method sep "$sep" dec "$dec" outputdatapvalue $dataMatrixPValue outputdatafiltered $dataMatrixFiltered |
| 22 ]]></command> | 22 </command> |
| 23 | 23 |
| 24 <inputs> | 24 <inputs> |
| 25 <param name="input" type="data" label="Data Matrix file" format="tabular" help="Matrix of numeric data with headers." /> | 25 <param name="input" type="data" label="Data Matrix file" format="tabular" help="Matrix of numeric data with headers." /> |
| 26 <param name="sampleinfo" type="data" label="Sample Metadata file" format="tabular" help="Tabular file with the data metadata : one sample per line and at least two columns : ids and one condition" /> | 26 <param name="sampleinfo" type="data" label="Sample Metadata file" format="tabular" help="Tabular file with the data metadata : one sample per line and at least two columns : ids and one condition" /> |
| 27 | 27 |
| 90 <output name="dataMatrixPValue" file="dataMatrix.tsv_anova_pvalue.tabular" /> | 90 <output name="dataMatrixPValue" file="dataMatrix.tsv_anova_pvalue.tabular" /> |
| 91 <output name="dataMatrixFiltered" file="dataMatrix.tsv_anova_filtered.tabular" /> | 91 <output name="dataMatrixFiltered" file="dataMatrix.tsv_anova_filtered.tabular" /> |
| 92 </test> | 92 </test> |
| 93 </tests> | 93 </tests> |
| 94 | 94 |
| 95 <help><![CDATA[ | 95 <help> |
| 96 | 96 |
| 97 .. class:: infomark | 97 .. class:: infomark |
| 98 | 98 |
| 99 **Authors** Gildas Le Corguille ABiMS - UPMC/CNRS - Station Biologique de Roscoff - gildas.lecorguille|at|sb-roscoff.fr | 99 **Authors** Gildas Le Corguille ABiMS - UPMC/CNRS - Station Biologique de Roscoff - gildas.lecorguille|at|sb-roscoff.fr |
| 100 | 100 |
| 246 | 246 |
| 247 **General schema of the metabolomic workflow** | 247 **General schema of the metabolomic workflow** |
| 248 | 248 |
| 249 .. image:: anova_workflow.png | 249 .. image:: anova_workflow.png |
| 250 | 250 |
| 251 ]]></help> | 251 </help> |
| 252 | 252 |
| 253 <citations> | 253 <citations> |
| 254 <citation>Ronald A. Fisher in the 1930s</citation> | 254 <citation>Ronald A. Fisher in the 1930s</citation> |
| 255 </citations> | 255 </citations> |
| 256 | 256 |