comparison abims_anova.xml @ 5:e2c81089af0d draft

planemo upload commit a7485d1c72ab7a04cb1bcb8f580d7b1f4655e7f4-dirty

4:e1a77f4a20dc

    <stdio>
        <exit_code range="1:" level="fatal" />
    </stdio>

    <command interpreter="Rscript">
abims_anova.r file "$input" sampleinfo "$sampleinfo" mode "$mode" 
condition "c('$condition_1'
#for $i, $s in enumerate( $conditions )
,'${s.condition}'
#end for
)"
interaction $interaction method $method threshold $threshold selection_method $selection_method sep "$sep" dec "$dec" outputdatapvalue $dataMatrixPValue outputdatafiltered $dataMatrixFiltered
    </command> 

    <inputs>
        <param name="input" type="data" label="Data Matrix file" format="tabular" help="Matrix of numeric data with headers." />
        <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" />
        

            <output name="dataMatrixPValue" file="dataMatrix.tsv_anova_pvalue.tabular" />
            <output name="dataMatrixFiltered" file="dataMatrix.tsv_anova_filtered.tabular" />
        </test>
    </tests>

    <help>

.. class:: infomark

**Authors** Gildas Le Corguille  ABiMS - UPMC/CNRS - Station Biologique de Roscoff - gildas.lecorguille|at|sb-roscoff.fr 

**General schema of the metabolomic workflow**

.. image:: anova_workflow.png

    </help>

    <citations>
        <citation>Ronald A. Fisher in the 1930s</citation>
    </citations>

5:e2c81089af0d

    <stdio>
        <exit_code range="1:" level="fatal" />
    </stdio>

    <command interpreter="Rscript"><![CDATA[
abims_anova.r file "$input" sampleinfo "$sampleinfo" mode "$mode" 
condition "c('$condition_1'
#for $i, $s in enumerate( $conditions )
,'${s.condition}'
#end for
)"
interaction $interaction method $method threshold $threshold selection_method $selection_method sep "$sep" dec "$dec" outputdatapvalue $dataMatrixPValue outputdatafiltered $dataMatrixFiltered
    ]]></command> 

    <inputs>
        <param name="input" type="data" label="Data Matrix file" format="tabular" help="Matrix of numeric data with headers." />
        <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" />
        

            <output name="dataMatrixPValue" file="dataMatrix.tsv_anova_pvalue.tabular" />
            <output name="dataMatrixFiltered" file="dataMatrix.tsv_anova_filtered.tabular" />
        </test>
    </tests>

    <help><![CDATA[

.. class:: infomark

**Authors** Gildas Le Corguille  ABiMS - UPMC/CNRS - Station Biologique de Roscoff - gildas.lecorguille|at|sb-roscoff.fr 

**General schema of the metabolomic workflow**

.. image:: anova_workflow.png

    ]]></help>

    <citations>
        <citation>Ronald A. Fisher in the 1930s</citation>
    </citations>