changeset 5:5868599b6b91

Uploaded mmseq analysis pipeline script file
author mmseq
date Mon, 15 Aug 2011 11:59:22 -0400
parents a62af63ae8ff
children feda458ea8c5
files mmseq.sh
diffstat 1 files changed, 8 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/mmseq.sh	Mon Aug 15 11:59:22 2011 -0400
@@ -0,0 +1,8 @@
+#!/bin/bash
+
+TEMP=bam.hits
+bam2hits $1 $2 > $TEMP 2> /dev/null
+mmseq $TEMP output > /dev/null
+mv output.mmseq $3
+mv output.gene.mmseq $4
+mv output.amalgamated.mmseq $5