Mercurial > repos > biomonika > linkyx

diff reformat_trinity_header.sh @ 7:92bc88be0e9d

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toolshed5
author biomonika <biomonika@psu.edu>
date Tue, 09 Sep 2014 13:58:34 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/reformat_trinity_header.sh	Tue Sep 09 13:58:34 2014 -0400
@@ -0,0 +1,9 @@
+#!/bin/bash
+
+results=$1 #reformatted fasta sequence written here
+trinity_fasta=${2}
+
+perl -pe 's/(>[\S]+).+/$1/' $trinity_fasta >$results
+samtools faidx $results
+
+