Rapid and Accurate Multiple Testing Correction and Power Estimation for Millions of Correlated Markers
A dataset of 2,000 cases and 2,000 controls is generated from the HapMap CEU data. Using each method, we estimate the per-marker threshold corresponding to a significance level of .05. The effective number of test is simply .05 divided by the per-marker threshold. The dashed lines denote the interval where an accurate methods' estimate will be found more than 95% of the time.