Mercurial > repos > yufei-luo > s_mart

diff smart_toolShed/SMART/galaxy/getWigDistance.xml @ 0:e0f8dcca02ed

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Uploaded S-MART tool. A toolbox manages RNA-Seq and ChIP-Seq data.
author yufei-luo
date Thu, 17 Jan 2013 10:52:14 -0500
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/smart_toolShed/SMART/galaxy/getWigDistance.xml	Thu Jan 17 10:52:14 2013 -0500
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+<tool id="getWigDistance" name="get wig distance">
+    <description>Compute the average data around some genomic coordinates using WIG files (thus covering a large proportion of the genome).</description>
+    <command interpreter="python">
+		../Java/Python/getWigDistance.py -i $inputGff3File -f gff3 -w $inputWigFile -a 0.0 -d $distance $strand -o $outputFile
+	</command>
+	
+    <inputs>
+    	<param name="inputGff3File" type="data" label="Input Gff3 File (compulsory option)" format="gff3"/>
+   		<param name="inputWigFile" type="data" label="Input Wig File (compulsory option)" format="wig"/>
+		<param name="distance" type="integer" value="1000" label="distance option (compulsory option)" help="Distance around position.Be Careful! The value must be upper than 0"/>
+		<param name="strand" type="boolean" truevalue="-s" falsevalue="" checked="false" label="consider both strands separately."/>    
+    </inputs>
+        
+    <outputs>
+       	<data name="outputFile" format="png" label="[getWigDistance] PNG output File"/>    
+    </outputs> 
+</tool>