Mercurial > repos > biomonika > linkyx
diff scripts/isoform_exists.sh @ 9:695d28139f3e
toolshed8
| author | biomonika <biomonika@psu.edu> |
|---|---|
| date | Tue, 09 Sep 2014 14:31:02 -0400 |
| parents | 1955f03f092e |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scripts/isoform_exists.sh Tue Sep 09 14:31:02 2014 -0400 @@ -0,0 +1,6 @@ +#!/bin/bash +#we will search for isoforms of this contig +contig_to_search=$1; +reference=$2; +#including only putative isoforms +part=`echo $contig_to_search | sed -n "s/^\(.*\_c[0-9]\+\)\_seq[0-9]\+/\1/p"`; egrep "$part\_" $reference | grep -v $contig_to_search; \ No newline at end of file