the difference in allele frequencies is large (>0.4) and the minor admixture proportion is high (>0.2) [Deng et al., 2001]. Similarly, simulation studies have shown that the power of the Hardy-Weinberg test to detect disequilibrium due to genotyping errors at typed markers is also low given the estimated error rates for experimental genotyping [Leal, 2005; Cox and Kraft, 2006]. Nevertheless, because the Hardy-Weinberg test has moderate power to detect disequilibrium at an error rate of 10% at untyped markers, we posit that Hardy-Weinberg disequilibrium at untyped markers is most likely due to imputation error.
