Test-drive the GATK tools and Best Practices pipelines on Terra


Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.

How can I fix the following error which is regarding to Baserecalibrator function?

mahyarheymahyarhey BostonMember
ERROR ------------------------------------------------------------------------------------------
ERROR A USER ERROR has occurred (version 3.1-1-g07a4bf8):
ERROR This means that one or more arguments or inputs in your command are incorrect.
ERROR The error message below tells you what is the problem.
ERROR MESSAGE: SAM/BAM file SAMFileReader{xxxx.bam} appears to be using the wrong encoding for quality scores: we encountered an extremely high quality score (72) with BAQ correction factor of 8; please see the GATK --help documentation for options related to this error

Answers

Sign In or Register to comment.