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. Author manuscript; available in PMC: 2018 May 1.
Published in final edited form as: Res Comput Mol Biol. 2017 Apr 12;10229:99–116. doi: 10.1007/978-3-319-56970-3_7

Fig. 1. Partial calibration (TDC).

Fig. 1

A The set of middle curves, which correspond to the log of the ratio between the empirical FDR and the nominal FDR level, essentially coincide for all considered numbers of calibrating decoys (the modest liberal bias of TDC for low FDR values is discussed in Sec. 3.2). The set of lower and upper curves correspond to the log of the ratio of the 0.05 and 0.95 quantiles of the FDP to the nominal FDR level. B The mean number of (TDC) target discoveries consistently increases with the number of calibrating decoys, although the law of diminishing returns is quite evident. A-B All means and quantiles are taken with respect to 10K simulation runs using our raw score, each with 10K spectra, 50% native spectra. The number of calibrating decoys was varied from 0 to 2047 (see Methods for details).