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A calibrated score mostly yields more discoveries (Käll). Each panel plots, as a function of estimated FDR, the ratio of the number of Käll method discoveries at FDR ≤ 0.1 when using the calibrated score (numerator) versus the number of discoveries at the same FDR when using the raw score (denominator). The solid line represents the median ratio with respect to 1000 independently drawn decoy sets, whereas the 0.95 and 0.05 quantiles of the ratios are represented as dots.
