Mercurial > repos > konradpaszkiewicz > preppereadsforveletfasta

diff prepare_pe_reads_for_velvet_fasta.sh @ 0:4d237a31970b default tip

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Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
author konradpaszkiewicz
date Tue, 07 Jun 2011 17:42:21 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/prepare_pe_reads_for_velvet_fasta.sh	Tue Jun 07 17:42:21 2011 -0400
@@ -0,0 +1,7 @@
+#!/bin/bash
+##<fastq1 in> <fastq1 out> <fastq2 in> <fastq2 out> <singletons reads out> <pe reads output>
+## $5 and $6 are outputs
+perl /usr/local/velvet/contrib/select_paired/select_paired.pl $1 $2 $3 $4 $5
+perl /usr/local/velvet/shuffleSequences_fasta.pl $2 $4 $6
+rm -f $2
+rm -f $4