Andrew Uzilov
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Latest activity by Andrew Uzilov-
Andrew Uzilov commented,
On a related note, the table in the section "B. Hard Filters" doesn't seem to match my Mutect2 output VCFs in GATK v4.1.8.0, here are some examples: "fragment_length" is called "fragment" in VCF --...
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Andrew Uzilov commented,
It would be really useful if the whitepaper had a table giving the names of all the INFO and FORMAT fields in the Mutect2 post-filter VCF cross-referenced to the name of the variables in the whitep...
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Andrew Uzilov created a post,
documentation for Mutect2 theory
AnsweredWhat is the best way to map Mutect2 input command-line arguments and output VCF fields to the variables described in the Mutect2 whitepaper in its GitHub repo? It isn't obvious to me which variabl...