Mercurial > repos > biomonika > linkyx

diff scripts/reformat_trinity_header.sh @ 0:1955f03f092e

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
initial commit
author biomonika <biomonika@psu.edu>
date Tue, 02 Sep 2014 14:16:04 -0400
parents
children
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/scripts/reformat_trinity_header.sh	Tue Sep 02 14:16:04 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
+
+