Question: Is it necessery to perform GATK-BQSR before performing variant calling using freebayes.
0
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
1
gravatar for finswimmer77
9 days ago by
finswimmer7780
finswimmer7780 wrote:

Hello,

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

fin swimmer

ADD COMMENTlink written 9 days ago by finswimmer7780
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 703 users visited in the last hour