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It is usually useful to examine the call sets against known data sets for the passed variants.
 
It is usually useful to examine the call sets against known data sets for the passed variants.
   −
  ${GC}/bin/vt profile_indels -g indel.reference.txt  -r hs37d5.fa ${OUT}/final/all.genotypes.vcf.gz -i 22:36000000-37000000 -f "PASS"
+
${GC}/bin/vt profile_indels -g ${VTREF}/indel.reference.txt  -r ${REF}/human.g1k.v37.chr22.fa ${OUT}/final/all.genotypes.vcf.gz -i 22:36000000-37000000 -f "PASS"
 +
 
    
   data set
 
   data set

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