Case Analysis of GATK Hard-filter filtering variation result
This article mainly introduces the relevant knowledge of "case analysis of GATK Hard-filter filtering variation results". The editor shows you the operation process through actual cases, and the operation method is simple, fast and practical. I hope this article "case analysis of GATK Hard-filter filtering variation results" can help you solve the problem.
Research on Hard-filter threshold
The recommended threshold on the official website of GATK4: For SNPs:
QD
< 2.0MQ < 40.0FS >60.0SOR > 3.0MQRankSum
< -12.5ReadPosRankSum < -8.0 For indels: QD < 2.0ReadPosRankSum < -20.0InbreedingCoeff < -0.8FS >200.0SOR > 10.0 on the "GATK Hard-filter filtering variation result case analysis" content is introduced here, thank you for reading. If you want to know more about the industry, you can follow the industry information channel. The editor will update different knowledge points for you every day.
