I am conducting a GWAS and would like to test for a G x E interaction within linear regression. My genotypes are imputed from minimac, and my phenotype is quantitative. I know that the R package “CGEN” will test G x E interactions with imputed data, but it only performs logistic regression, not linear. I cannot seem to find software that will meet all three of my criteria: imputed data, quantitative phenotype, and G x E interaction. Does anyone know of a program that would meet my needs.

All suggestions are appreciated.

Paul