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view snpEff/snpEff-pipe.sh @ 23:a1ab979f4551 draft

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author dereeper
date Mon, 23 Mar 2015 05:52:17 -0400
parents 13cff72ec2d3
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#!/bin/bash
vcf=$1
genome=$2
gff=$3
output=$4
html=$5
log=$6

directory=`dirname $0`
 
/usr/bin/perl $directory/SnpEff.pl -i $vcf -f $genome -g $gff -o $output -h $html >>$log 2>&1