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comparison scripts/isoform_exists.sh @ 9:695d28139f3e

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toolshed8
author biomonika <biomonika@psu.edu>
date Tue, 09 Sep 2014 14:31:02 -0400
parents 1955f03f092e
children
comparison
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8:983278b1fdb2 9:695d28139f3e
1 #!/bin/bash
2 #we will search for isoforms of this contig
3 contig_to_search=$1;
4 reference=$2;
5 #including only putative isoforms
6 part=`echo $contig_to_search | sed -n "s/^\(.*\_c[0-9]\+\)\_seq[0-9]\+/\1/p"`; egrep "$part\_" $reference | grep -v $contig_to_search;