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Last relic of old qual #6111

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davidbenjamin opened this issue Aug 23, 2019 · 0 comments · Fixed by #6343
Closed

Last relic of old qual #6111

davidbenjamin opened this issue Aug 23, 2019 · 0 comments · Fixed by #6343
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HaplotypeCaller question

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@davidbenjamin
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HaplotypeCallerEngine::isActive still invokes a calculateSingleSampleRefVsAnyActiveStateProfileValue method that relies on allele count priors and dodgy math left over from the old days. Can we use AlleleFrequencyCalculator instead?
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single sample fast mode for qual is HC isActive broadinstitute/gatk
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