To celebrate the release of GATK 4.0, we are giving away free credits for running the GATK4 Best Practices pipelines in FireCloud, our secure online analysis portal. It’s first come first serve, so sign up now to claim your free credits worth $250. Sponsored by Google Cloud. Learn more at https://software.broadinstitute.org/firecloud/documentation/freecredits

HaplotypeCaller calling as heterozygotes incorrectly

I am finding that HaplotypeCaller is calling heterozygotes when there is no evidence when you look in IGV. Is this still a known problem?

I am using version 2.8-1-g932cd3a. Attached are two screen shots in IGV where a heterozygotes is wrongly called:

Answers

Sign In or Register to comment.