Mercurial > repos > ulfschaefer > filter_vcf
diff filter_vcf.sh @ 0:834a312c0114 draft
Uploaded
author | ulfschaefer |
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date | Thu, 10 Dec 2015 09:22:39 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/filter_vcf.sh Thu Dec 10 09:22:39 2015 -0500 @@ -0,0 +1,14 @@ +#!/bin/bash + +OUTPUT=$1 +shift +VCF=$1 +shift +FILTERS=$@ + +FILTERS=$(echo -n $FILTERS | sed 's/ /,/g') + +CMD="filter_vcf.py --vcf $VCF --filters $FILTERS --output $OUTPUT" + +echo "CMD: "$CMD +eval $CMD