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comparison SMART/galaxy/computeCoverage.xml @ 15:440ceca58672

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Uploaded
author m-zytnicki
date Mon, 22 Apr 2013 11:08:07 -0400
parents 769e306b7933
children 94ab73e8a190
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14:c79b9ae3f65f 15:440ceca58672
1 <tool id="ComputeCoverage" name="Compute coverage"> 1 <tool id="ComputeCoverage" name="compute coverage">
2 <description>Compute the coverage of a set with respect to another set.</description> 2 <description>Compute the coverage of a set with respect to another set.</description>
3 <command interpreter="python"> 3 <command interpreter="python">
4 ../Java/Python/ComputeCoverage.py -i $formatType.inputFileName1 4 ../Java/Python/ComputeCoverage.py -i $formatType.inputFileName1
5 #if $formatType.FormatInputFileName1 == 'bed': 5 #if $formatType.FormatInputFileName1 == 'bed':
6 -f bed 6 -f bed
101 101
102 <outputs> 102 <outputs>
103 <data name="outputFileGff" format="gff3" label="[computeCoverage] OUTPUT file"/> 103 <data name="outputFileGff" format="gff3" label="[computeCoverage] OUTPUT file"/>
104 </outputs> 104 </outputs>
105 105
106 <help>
107 This tool considers a query and a reference files, and gives the coverage of the query file by the reference. The output file is similar to the query file, where a tag **coverage** has been added.
108 </help>
106 </tool> 109 </tool>
107 110