Mercurial > repos > xuebing > sharplab_seq_motif
comparison mytools/closestBed.xml @ 0:39217fa39ff2
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| author | xuebing |
|---|---|
| date | Tue, 13 Mar 2012 23:34:52 -0400 |
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| -1:000000000000 | 0:39217fa39ff2 |
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| 1 <tool id="closestbed" name="closestBed"> | |
| 2 <description>find closest features</description> | |
| 3 <command>closestBed -a $inputa -b $inputb $strandness -d $no -t $tie> $output_data | |
| 4 </command> | |
| 5 <inputs> | |
| 6 <param name="inputa" type="data" format="interval,bam,bed,gff,vcf" label="Input A (-a)"/> | |
| 7 <param name="inputb" type="data" format="interval,bam,bed,gff,vcf" label="Input B (-b)"/> | |
| 8 <param name="strandness" type="select" label="Strand requirement" > | |
| 9 <option value="" selected="true"> none </option> | |
| 10 <option value="-s" > -s: closest feature on the same strand</option> | |
| 11 <option value="-S" > -S: closest feature on the opposite strand </option> | |
| 12 </param> | |
| 13 | |
| 14 <param name="no" label="Only look for non-overlaping features" type="boolean" truevalue="-no" falsevalue="" checked="False"/> | |
| 15 <param name="tie" type="select" label="Strand requirement" > | |
| 16 <option value="all" selected="true"> report all ties </option> | |
| 17 <option value="first" > report the first that occurred</option> | |
| 18 <option value="last" > report the last that occurred </option> | |
| 19 </param> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 <data format="input" name="output_data"/> | |
| 23 </outputs> | |
| 24 <help> | |
| 25 | |
| 26 **What it does** | |
| 27 | |
| 28 This is a wrapper for closestBed. | |
| 29 | |
| 30 </help> | |
| 31 </tool> | |
| 32 |