using glm for GWA study

Question

[f.hadizadeh]

Hi all, I would like to run a gwa study on a count data as the outcome variable. So I would like to use glm instead of lm to be able to define my family since my data is not normally distributed. I can't find a package in R or any other software like Plink, GCTA, etc. which can be useful for this (to run the analyses genome-wide on the imputed data). What should I do? I would be very thankful if anyone could help me. Thanks.

[Jean-Karim Heriche]

What about the glm() function and the glmnet package ? What's wrong with them ?