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. Author manuscript; available in PMC: 2013 Jul 1.
Published in final edited form as: Comput Stat Data Anal. 2012 Jul 1;56(7):2317–2333. doi: 10.1016/j.csda.2012.01.012

Figure 6.

Figure 6

Ranking of p-values found in the “M” vs. “S” treatment contrast of the real proteomics dataset as a function of test-statistics, FDR adjustment procedure, and scale (top row:LOG-scale - bottom row:RAW -scale). Results are reported for each procedure with either Benjamini-Yekutieli's FDR control procedure under variable dependency (BY), Benjamini-Hochberg's regular F DR control procedure (BH), or John Storey's robust computation of the positive pFDR (JS). For the computation of the p-values, we followed the resampling scheme as described in Subsection 4.3 with B′ = 256 bootstrap samples.