PRS with multiple panels of SNP weights

Question

[landscape95]

Hi everyone,

I would like to estimate the Polygenic risk score with multiple SNP weight panels, do you know what is the most efficient way to do that?

I tried with PLINK(2) but it seems each time, we will need to read the genotype file again which is time-consuming.

Thank you very much!

Answer 1

[chrchang523]

PLINK2 accepts a multicolumn file, where each column corresponds to a different set of SNP weights.

[landscape95]

Thanks you very much Christopher!