We've moved!
This site is now read-only. You can find our new documentation site and support forum for posting questions here.
Be sure to read our welcome blog!

How to call SNP without confidence SNP ?

I have WGS data of 100 samples. There's few people work on my species,so I didn't find confidence SNP set to use.
I follow the best-practices of GATK. And my question is how to get convinced SNP from my data ? For I see there is a --db snp in the tool HaplotypeCaller.
By the way, someone told me I can call variants by different software and take the same part as my known sites. Does it work?


Best Answers


Sign In or Register to comment.