I was wondering if someone could help me clear up some confusion I have understanding pfp in the RankProd Package. If topGene returns a list of 10 genes (from a data set containing 20,000 genes), and the gene ranked 8 on the list has a pfp percentage false positive) of 0.5, then does that mean that the list of genes ranked 1-8 have an estimated false positive rate of 0.04 ( 0.005 X 8 ), that is, 0.04 genes on the list (ranks 1-8) are expected to be false positives, or does it mean that the false positive rate for that gene and all ranked above it (ranks 1-8) is 100 (0.005 X 20,000); 100 on the list are expected to be false ? Or maybe I am missing it altogether ? Matthew