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broadinstitute / gatk-protected

Obsolete/Legacy GATK repository -- go to https://github.com/broadinstitute/gatk instead
BSD 3-Clause "New" or "Revised" License
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Mutect2 cfDNA baseline evaluation #797

Closed davidbenjamin closed 7 years ago

davidbenjamin commented 7 years ago

We have cfDNA bams and corresponding solid tumor bams.

The evaluation is to calculate concordance of cfDNA calls against solid tumor calls, the idea being that low allele-fraction cfDNA is much harder, therefore tumor calls are relative "truth."

davidbenjamin commented 7 years ago

This issue and the FFPE one should be separate instances of the same wdl workflow.

davidbenjamin commented 7 years ago

Put into issue #903.