Question: Is it necessery to perform GATK-BQSR before performing variant calling using freebayes.
gravatar for sktbanerjee1
10 days ago by
sktbanerjee10 wrote:

I am trying to call variants from whole exome paired end sequences aligned to HG38p7 using the Freebayes variant caller. As it is a general recommendation to perform BQSR before any type of variant calling, I was wondering is it necessary to perform the BQSR before calling variants with freebayes?

freebayes bqsr gatk • 81 views
ADD COMMENTlink modified 9 days ago by finswimmer7780 • written 10 days ago by sktbanerjee10
gravatar for finswimmer77
9 days ago by
finswimmer7780 wrote:


the authors of freebayes itself are saying, that neither BQSR nor VQSR is neccessary.

fin swimmer

ADD COMMENTlink written 9 days ago by finswimmer7780
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