Mercurial > repos > davidvanzessen > baseline_fasta_generator

diff baseline_generator.xml @ 0:91221003f5ee draft

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author davidvanzessen
date Tue, 15 Jul 2014 08:51:22 -0400
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children 85f18c2f74dd
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/baseline_generator.xml	Tue Jul 15 08:51:22 2014 -0400
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+<tool id="baseline_fasta_generator" name="Baseline generator" version="1.0">
+	<description>Generate baseline fasta file</description>
+	<command interpreter="python">
+		script.py --input $in_file --ref $reference --output $out_file
+	</command>
+	<inputs>
+		<param name="in_file" type="data" label="Input fasta file" />
+		<param name="reference" type="data" format="fasta" label="Reference fasta file" />
+	</inputs>
+	<outputs>
+		<data format="fasta" name="out_file" label = "Baseline generator on $in_file.name with $reference.name"/>
+	</outputs>
+	<help>
+			Gur Yaari; Mohamed Uduman; Steven H. Kleinstein. Quantifying selection in high-throughput Immunoglobulin sequencing data sets. Nucleic Acids Res. 2012 May 27.
+
+			Mohamed Uduman; Gur Yaari; Uri Hershberg; Mark J. Shlomchik; Steven H. Kleinstein. Detecting selection in immunoglobulin sequences. Nucleic Acids Res. 2011 Jul;39(Web Server issue):W499-504.
+	</help>
+</tool>