diff kmersvm/kmertopwm.xml @ 7:fd740d515502 draft default tip

Uploaded revised kmer-SVM to include modules from kmer-visual.

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/kmersvm/kmertopwm.xml	Sun Jun 16 18:06:14 2013 -0400
@@ -0,0 +1,25 @@
+<tool id="kmer2meme" name="Kmer To MEME">
+	<description>Convert kmers to MEME format for motif finding by Tomtom</description>
+	<command interpreter="perl">kmer2meme.pl
+		$weights $N
+	</command>
+	
+	<inputs>
+		<param format="tabular" name="weights" type="data" label="Kmer Weights"/>
+		<param type="integer" name="N" value="10" label="Kmer Number">
+			<validator type="in_range" message="Kmer number must be in range 1 - 50" min="1" max="50"/>
+		</param>
+	</inputs>
+	
+	<outputs>
+		<data format="txt" from_work_dir="kmer2meme.meme" name="MEME for Kmers" label="${tool.name} on ${on_string}: MEME"/>
+	</outputs>
+	
+	<help>
+This is a utility function that creates PWMs in MEME format for use with Tomtom.
+		
+'Kmer Weights' is the weight file generated by 'Train SVM'.	
+
+'Kmer Number' is the number of most positive and most negative kmers to be processed.
+	</help>
+</tool>