Analysing the X chr with --mlma

Hi Laura,

I think males and females can be run jointly. But I'm not sure about the coded genotypes of males, 0/1 or 0/2, in terms of dosage compensation. Maybe you could try running association by R using the residuals conditioned on GRM as phenotype, "--reml-pred-rand" ( more detailed information can be found at www.complextraitgenomics.com/software/gcta/reml.html).

Cheers,
Zhihong