Simulation results for LRTS under alternative distributions.

Legend for Table 2. Based on 1000 replications and 200 sample size per case/control group.*95% approximate confidence intervals for simulated power are given in parentheses.Here, we present simulated and asymptotic power for the LRTS when the alternative hypothesis that mixing proportions are different in each of two groups is true. The mixing proportions are computed using equations (4) for the Dosage and Extremes models, where CNP population frequencies are as specified above (Methods - Genetic model parameters for efficiency analysis). For the Dosage model, the relative risks are: R2 = 1.8, R3 = 1.82 = 3.64, R4 = 1.83 = 5.83. For the Extremes model, the relative risks are: R1 = 1, R2 = 0.3, R3 = 0.3, R4 = 1. Asymptotic power is computed using the non-centrality parameter documented in equation (A1). The column ��KS-Test P-value�� refers to the p-value computed using the Kolmogoroff-Smirnoff goodness of fit test, as implemented in R programming environment.