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Figure 4 | Genome Biology

Figure 4

From: Patient-oriented gene set analysis for cancer mutation data

Figure 4

Calibration analysis. Plot of the average true fraction of false discoveries versus the average q-value over 100 simulation runs. The identity line indicates the ideal scenario of a perfect FDR-control rate; being above the identity line indicates anti-conservative behavior, and being below the identity line indicates conservative behavior. Simulations use the permutation null (top panel) or the passenger null (bottom panel). The gene-oriented method shows very anti-conservative behavior while the patient-oriented methods are generally calibrated or conservative.

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