Mercurial > repos > timpalpant > java_genomics_toolkit

diff galaxy-conf/FindBoundaryNucleosomes.xml @ 4:4b32ed5d4a1b

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author timpalpant
date Tue, 14 Feb 2012 00:59:33 -0500
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children b1952a90d4bf
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/galaxy-conf/FindBoundaryNucleosomes.xml	Tue Feb 14 00:59:33 2012 -0500
@@ -0,0 +1,17 @@
+<tool id="FindNuke" name="Find boundary nucleosomes" version="1.0.0">
+  <description>in windows</description>
+  <command interpreter="sh">galaxyToolRunner.sh nucleosomes.FindBoundaryNucleosomes -i $input -l $loci -o $output</command>
+  <inputs>
+    <param name="input" type="data" format="nukes" label="Nucleosome calls" />
+    <param name="loci" type="data" format="bed" label="List of intervals" />
+  </inputs>
+  <outputs>
+    <data name="output" format="bed" metadata_source="loci" />
+  </outputs>
+  
+  <help>
+    .. class:: warningmark
+    
+    Use the Greedy Caller tool to create a file of called nucleosomes, then use this tool to identify the first nucleosome's dyad position from the 5' or 3' end.
+  </help>
+</tool>