invalid --hwe parameter sequence error when doing QC

Question

[Karan]

Hi, all -

Been running this statement to conduct a QC:

plink --bfile ft_maf --hwe 1e-50 keep-fewhet --make-bed --out ft_hwe_gt

However, that keeps on giving me a "Error: Invalid --hwe parameter sequence."

What is wrong?

Answer 1

[chrchang523]

The 'keep-fewhet' modifier requires PLINK 2.0; you are using PLINK 1.9 here.