Mercurial > repos > dereeper > snpeff_from_gff_vcf

annotate snpEff-pipe.sh @ 1:633d264f8888 draft default tip

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planemo upload commit 475f4d7d8442a0d75e103af326ae5881c4d2a4ac
author dereeper
date Mon, 16 Apr 2018 08:56:29 -0400
parents abde5b0387c8
children
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1 #!/bin/bash
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2 vcf=$1
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3 genome=$2
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4 gff=$3
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5 output=$4
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6 html=$5
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7 log=$6
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9 directory=`dirname $0`
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11 /usr/bin/perl $directory/SnpEff.pl -i $vcf -f $genome -g $gff -o $output -h $html >>$log 2>&1
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