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

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

<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>