I have a single common factor and several manifest phenotypic variables. I'd like to determine the relationship between the factor and several SNPs of interest.
I'm not sure exactly how to model the factor means with respect to SNP status (coded 0,1,2 for homozygotes, heterozygotes, and the other homozygotes). A preliminary thought was to fit a multi-group CFA with one group for each genotype, and allow the means to vary across groups. There must be a better way than this that involves a single-group CFA means model.
I've seen plenty scripts that model the manifest variable means, but nothing where the factor means were modeled.
Any thoughts, references, or example scripts? By the way, I've posted here in the past and am very impressed and appreciative of the rapid and helpful responses!