view clonotype_computation.xml @ 1:acaa8e8a0b88 draft default tip

Uploaded test-data & added tool help

<tool id="clonoComput" name="Clonotype Diversity &amp; Expression" version="1.0">
    <description>Compute clonotype diversity and expression from filtered file</description>
    <requirements>
      <requirement type="package" version="0.19">pandas</requirement>
		</requirements>
    <command interpreter="python">clonotype_computation.py $input $clonotype $clonos_file $top10_file $summary_file ${input.name}</command>
    <inputs>
        <param name="clonotype" type="select" label="Clonotype definition">
            <option value="CDR3">CDR3</option>
            <option value="VCDR3">V+CDR3</option>
            <option value="JCDR3">J+CDR3</option>
            <option value="VJCDR3">V+J+CDR3</option>
            <option value="VDJCDR3">V+D+J+CDR3</option>
        </param>
        <param format="tabular" name="input" type="data" label="Filtered-in File" />
    </inputs>
    <outputs>
        <data name="clonos_file" format="tabular" label="${input.name}_clonotypesAll" />
        <data name="top10_file" format="tabular" label="${input.name}_clonotypesTop10" />
        <data name="summary_file" format="tabular" label="${input.name}_clonotypesSummary" />
    </outputs>
    <help>
This tool calculates the clonotype diversity and expression of a filtered-in dataset (1st output file of the Data Filtering tool) according to the 5 supported clonotype definitions.
  </help>
</tool>