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If PoN QC removes all samples and the number of input samples is small, should we automatically disable the QC? #729

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LeeTL1220 opened this issue Sep 30, 2016 · 1 comment
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If PoN QC removes all samples and the number of input samples is small, should we automatically disable the QC? #729

LeeTL1220 opened this issue Sep 30, 2016 · 1 comment
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On a small corpus of samples, it seems the that the PoN QC is quite aggressive and will remove all samples. Can we have it automatically bypass the QC step?
@LeeTL1220 LeeTL1220 changed the title If PoN QC removes all samples and the number of input samples is small, should we disable the QC? If PoN QC removes all samples and the number of input samples is small, should we automatically disable the QC? Sep 30, 2016
@droazen droazen closed this as completed Jun 5, 2017
@droazen droazen mentioned this issue Jun 5, 2017
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droazen commented Jun 5, 2017

Issue moved to broadinstitute/gatk #2899 via ZenHub

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@droazen @LeeTL1220 @samuelklee