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1 <tool id="geneCompar" name="Gene Usage Comparison" version="1.0">
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2 <description>Compare gene usages from multiple repertoires</description>
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3 <requirements>
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4 <requirement type="package" version="0.19">pandas</requirement>
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5 </requirements>
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6 <command interpreter="python">gene_comparison.py "$output_file"
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7 #for x in $rep_files
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8 "$x.rpfile"
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9 "$x.rpfile.name"
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10 #end for
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11 </command>
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12 <inputs>
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13 <repeat name="rep_files" title="Patient" min="2">
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14 <param name="rpfile" type="data" label="File of gene usage repertoire" format="tabular"/>
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15 </repeat>
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16 </inputs>
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17 <outputs>
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18 <data format="tabular" name="output_file" label="geneUsageComparison"/>
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19 </outputs>
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20 <help>
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21 This tool compares the usage of each gene of the V or J family in 2 or more clonotype repertoires; uses the 1st output of the Gene Usage tool.
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22 </help>
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23 </tool>
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