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Filter M2 variants that occur on same haplotype as other filtered variants #5058

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davidbenjamin opened this issue Jul 27, 2018 · 1 comment
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Filter M2 variants that occur on same haplotype as other filtered variants #5058

davidbenjamin opened this issue Jul 27, 2018 · 1 comment
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Mutect2

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Many of our false positives have this pattern.

@takutosato I will use the two-pass framework from your orientation bias PR for this. The first pass will calculate a Set<String> of haplotype PID tags of filtered variants.
@davidbenjamin davidbenjamin added this to the Mutect2 milestone Jul 27, 2018
@davidbenjamin davidbenjamin self-assigned this Jul 27, 2018
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Closed by #5092.

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