timflutre/quantgen — Issue #4: compute permutation P-values as (k+1)/(P+1)
Author: timflutre
Created: 2012-02-29 23:30:33+00:00
State: open
Labels: get_summary_stats

In "get_summary_stats.cpp", no permutation P-value should be equal to 0. That's why Brian Browning explains in his paper describing PRESTO (BMC Bioinformatics 2008): "If k out of P permutations have a maximum test statistic greater than the maximum test statistic for the original data, the multiple-testing adjusted P-value for the experiment is (k+1)/(P+1)".