Mercurial > repos > jeremyjliu > region_motif_enrichment
comparison region_motif_intersect.xml @ 2:5d9014614d28 draft
Uploaded
| author | jeremyjliu |
|---|---|
| date | Fri, 17 Oct 2014 13:41:26 -0400 |
| parents | 19d2cffb8db3 |
| children | d281fed8ec61 |
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| 1:baf68a0e7cf4 | 2:5d9014614d28 |
|---|---|
| 1 <tool id="region_motif_intersect" name="Region Motif Intersect"> | 1 <tool id="region_motif_intersect" name="Region Motif Intersect"> |
| 2 <description>for computing the motifs that lie inside a region set</description> | 2 <description>for computing the motifs that lie inside a region set</description> |
| 3 <command interpreter="bash"> | 3 <requirements> |
| 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 | 4 <requirement type="set_environment">MOTIF_DB_PATH</requirement> |
| 5 </requirements> | |
| 6 <command interpreter="Rscript"> | |
| 7 region_motif_intersect.r --args $MOTIF_DB_PATH $db_type $in_bed $out_tab | |
| 5 </command> | 8 </command> |
| 6 <inputs> | 9 <inputs> |
| 7 <param name="in_bed" type="data" format="bed" label="Input BED File" /> | 10 <param name="in_bed" type="data" format="bed" label="Input BED File" /> |
| 8 <param name="db_type" type="select" label="Select Motif Database" > | 11 <param name="db_type" type="select" label="Select Motif Database" > |
| 9 <option value="t">Test Pouya Subset (hg19)</option> | 12 <option value="t">Test Pouya Subset (hg19)</option> |