Question: Lambda of correction for population stratification is large
gravatar for snowy
5.6 years ago by
snowy0 wrote:

Hi,I have conducted GWAS with binary traits. From Q-Qplot I find my data should carry out correction for population structure. however, after two different methods (GC and  EIGENSTRAT),Q-Qplots seem to be ok, the lambdas both are larger than 1.11 which are still beyond acceptable. Is the proper value of lambda essential? 
Moreover, when I use plink for GC, the result line upper the red line(standard) on the QQplot would be adjusted to below the red line.When I use GenABEL the adjusted result will be better. I don't understand if the problem is with my original data or something else.

Thank you for any help.

snp • 1.5k views
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