Bug Bulletin: we have identified a bug that affects indexing when producing gzipped VCFs. This will be fixed in the upcoming 3.2 release; in the meantime you need to reindex gzipped VCFs using Tabix.

BaseRecalibrator/PrintReads BD and BI flags

genecgenec Posts: 8Member
edited January 2013 in Ask the team

What are the BD and BI flags that get added to my bam files after base recalibration? They seem to consist of a long string of "N"s, and I'm trying to understand if that is correct.

Thanks!

Post edited by Geraldine_VdAuwera on

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