How to handle SNPs which are not included in Haplotype Reference Consortium (HRC)?

USCbiostats / AnnoQR

R client wrap for AnnoQ API

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How to handle SNPs which are not included in Haplotype Reference Consortium (HRC)? #4

Open Shicheng-Guo opened 2 years ago

Shicheng-Guo commented 2 years ago

Dear Team,

I am wondering How to handle SNPs which are not included in Haplotype Reference Consortium (HRC)? For example, rare/specific SNPs from UKB, FinnGEN, etc.

Thanks.

Shicheng

huaiyumi commented 2 years ago

We plan to expand our coverage to include all variants in dbSNP and TOPMed, but it won't happen until next year. We don't have any plan to expand additional resources. My guess is most, if not all, SNPs from UKB and FinnGEN are included in the above resources.

Shicheng-Guo commented 2 years ago

Great. Thanks HuaiYu!!

Shicheng-Guo commented 2 years ago

dbSNP155 will be a good choice!!