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BQSR step in pipeline #3

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humbleflowers opened this issue Oct 5, 2022 · 0 comments

humbleflowers commented Oct 5, 2022

Hello,

I see the paper does BQSR step in hg38 pipeline with high confidence sites but you skip it in T2T analysis,

Any particular reason for doing that and any caveats lifting over high confidence hg38 vcf to T2T and doing BQSR?

Awaiting your reply.

Thanks.

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