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annotate SMART/bacteriaRegulatoryRegion_Detection/coverageGff.xml @ 34:529e3e6a0954

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author m-zytnicki
date Tue, 30 Apr 2013 14:35:27 -0400
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1 <tool id="coverageGff" name="coverage Gff">
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2 <description>Computes reads coverage form a "nbElements" tag and writes the calculated coverage in a gff3 out file.</description>
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3 <command interpreter="perl"> coverageGff.pl -i $inputFile -l $readSize > $outputFile </command>
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4 <inputs>
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5 <param name="inputFile" type="data" label="Input File" format="gff"/>
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6 <param name="readSize" type="integer" value="38" help="The size of read, default: 38nt"/>
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8 </inputs>
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9
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10 <outputs>
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11 <data format="gff3" name="outputFile" label="[coveragePl] Output File"/>
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12 </outputs>
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13
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14 <help>
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15 command example: perl coverageGff.pl -i *_trans_inIG.gff > *_trans_inIG_cov.gff
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16 </help>
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17 </tool>