Mercurial > repos > jeremyjliu > region_motif_enrichment
comparison region_motif_intersect.xml @ 0:19d2cffb8db3 draft
Initial upload
author | jeremyjliu |
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date | Wed, 06 Aug 2014 15:36:46 -0400 |
parents | |
children | 5d9014614d28 |
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-1:000000000000 | 0:19d2cffb8db3 |
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1 <tool id="region_motif_intersect" name="Region Motif Intersect"> | |
2 <description>for computing the motifs that lie inside a region set</description> | |
3 <command interpreter="bash"> | |
4 /usr/bin/R --slave --vanilla -f $GALAXY_ROOT_DIR/tools/my_tools/region_motif_intersect.r --args $GALAXY_ROOT_DIR $db_type $in_bed $out_tab | |
5 </command> | |
6 <inputs> | |
7 <param name="in_bed" type="data" format="bed" label="Input BED File" /> | |
8 <param name="db_type" type="select" label="Select Motif Database" > | |
9 <option value="t">Test Pouya Subset (hg19)</option> | |
10 <option value="p">Pouya Encode Motifs (hg19)</option> | |
11 <option value="j">Jaspar and Jolma Motifs (hg19)</option> | |
12 <option value="m">Mouse Motifs (mm9)</option> | |
13 </param> | |
14 </inputs> | |
15 <outputs> | |
16 <data name="out_tab" format="tabular" /> | |
17 </outputs> | |
18 | |
19 <help> | |
20 This tool computes the motifs and the number of motifs that intersect | |
21 any region in a input set of regions. | |
22 </help> | |
23 | |
24 </tool> |