Mercurial > repos > yqiancolumbia > ctk_test
diff bedExt.xml @ 0:0475e4175855 draft default tip
planemo upload commit 81ece2551cea27cbd0e718ef5b7a2fe8d4abd071-dirty
author | yqiancolumbia |
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date | Mon, 30 Apr 2018 05:25:11 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/bedExt.xml Mon Apr 30 05:25:11 2018 -0400 @@ -0,0 +1,28 @@ +<tool id="bedExt" name="Get the position before the start site"> + <description>as a potential cross link site that causes truncation</description> + <command interpreter="perl"> + /home/galaxy/tools/CTK/bedExt.pl -n $NeighborRegion -l $LeftExtension -r $RightExtension -v $input $output + </command> + + <inputs> + <param name="input" type="data" format="bed" label="Input BED file in which CLIP tags with deletions were removed"/> + <param name="NeighborRegion" type="text" value="up" label="Get neighbor region relative to up|down|r=100"/> + <param name="LeftExtension" type="integer" value="-1" label="Extension on the left, with sign 0"/> + <param name="RightExtension" type="integer" value="-1" label="Extension on the right, with sign 0"/> + </inputs> + + <outputs> + <data name="output" format="bed" label="Output file in BED format extended around start site as a potential cross link site that causes truncation" /> + </outputs> + <help> + +.. class:: infomark + +**What this tool does** + +This tool will extract sequences specied by a bed file. + +Here it will take as input files in BED format in which CLIP tags with deletions were removed and output files in BED format extended around start site as a potential cross link site that causes truncation. + </help> +</tool> +