Hi All,

I am trying to determine the relative effect size of a set of variants using logistic regression (in R?). I have plink files to start from. Since this is a pretty common problem I was wondering if there is a straightforward R pipeline to do this. I searched around but so far no luck.

Thank you for any leads. General leads for good packages to analyze plink files in R also highly appreciated! Thanks!

Why not use plink --logistic?

Thank for your reply. I have tried plink's --logistic, but I dont think I am able to calculate nagelkerke's R^2 using plink. I may be mistaken though, and I am looking into this more now. Thanks again!