XWAS quality control

Question

[renjunling2020]

Hi,

I am writing to ask an advice about XWAS, I have raw genotyped call data and also the imputed data. I am doing XWAS analysis using imputed data. Is there any difference handling raw genotyped calls and imputed variants including plink --geno, --mind, --hardy command?

Thank you!

Best,
Junling