Accessing TopMed or 1000g ancestry data (GRCh38)

Question

[Mari]

I would like to use a GRCh38 reference genome data set, with additional ancestry data so that I can infer and plot the ancestry of my GWAS study participants. See the pca plot below for an example. My data is from a genotyping array and I imputed it using the TOPMed Server.

I have only been able to access older versions of reference data, and thus have to Liftover my study data to compare ancestry.

Does anyone know how I could access this data from either TopMed or the 1000 genome's project in GRCh38 build? Preferably in PLINK or VCF format. This would make my pipeline much more streamlined.

Answer 1

[chrchang523]

https://www.cog-genomics.org/plink/2.0/resources#1kg_phase3