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Recommended cval value for whole exome sequencing data #48

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hanyin88 opened this issue Jan 4, 2022 · 1 comment
Open

Recommended cval value for whole exome sequencing data #48

hanyin88 opened this issue Jan 4, 2022 · 1 comment

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@hanyin88
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hanyin88 commented Jan 4, 2022

Hello,

I would like to ask what would be the recommended cval number for WES data with 40x coverage when using facets-suite? I come across this post (https://github.com/taylor-lab/facets-suite/wiki/1.-Running-FACETS) and would like to check if purity-cval 1000 and cval 500 is still the recommendation. I am asking as these numbers are different than original FACETS facets default based on exome data which is 150 for procSample step.

Deeply appreciate the kind reply!
@zh9118
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zh9118 commented Jan 12, 2023

I am having the same question. Glad to see this issue, but so disappointed to see no replies. @hanyin88 did you find out an answer?

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@zh9118 @hanyin88