differences between 3 versions of MuTect

ars51ars51 Cleveland, OHMember
edited December 2013 in Ask the GATK team

Hello,
I've been running 3 different versions of MuTect on a set of tumor and matched-normal samples. Although all three versions produce comparable counts of somatic mutations, only the pre-release version (muTect-1.0.27783) returns anything with the 'KEEP' status. The other 2 versions ( muTect-1.1.1 and muTect-1.1.4) reject ALL returned somatic variants. I'm running all 3 versions of the software with default parameters. I was wondering if you could tell me what's different between the 3 releases of MuTect and why the later versions seem to be more conservative.

Thank you,

Alina

Post edited by Geraldine_VdAuwera on
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