Fig. 6
a TREAT p value (pi(e)) as a function of LFC (e), for xi = 5,  si = 1,  d = 10. A 95% lower confidence bound on the effect size can be found from the e at which pi(e) = 0.05. b Illustration of ranking method. Sets S(e) are sets of genes with effect size significantly exceeding threshold e at some desired FDR. These sets nest, providing a ranking of genes. From this diagram, the resulting confect values would be 1.5, 1, 1, 0.5, 0.5, 0.5, and 0 and with no value given to the final two genes