Bug Bulletin: The GenomeLocPArser error in SplitNCigarReads has been fixed; if you encounter it, use the latest nightly build.

Intervals specified using vcf files are off by 1

raylimraylim Posts: 1Member

I tried specifying intervals using a vcf file to HaplotypeCaller and I'm not getting the appropriate hits, because it appears that GATK is interpreting the vcf file as 0-based.

Tagged:

Answers

Sign In or Register to comment.