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1 <tool id="collapseBed" name="collapse">
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2 <description>intervals</description>
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3 <command interpreter="python">collapseBed2.py $input $strand $score > $outfile </command>
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4 <inputs>
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5 <param name="input" format="interval" type="data" label="Original file"/>
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6 <param name="strand" size="10" type="integer" value="6" label="strand column" help="set 0 to ignore strand information" />
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7 <param name="score" size="10" type="integer" value="5" label="for duplicate lines, keep the one with max value in column" help="set 0 to ignore score information" />
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8 </inputs>
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9 <outputs>
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10 <data format="input" name="outfile" />
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11 </outputs>
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12 <help>
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13
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14 **What it does**
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15
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16 This tool collapses genomic intervals that have the same position (and strandness if specified) and output a set of unique intervals.
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17
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18 </help>
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19 </tool>
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