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Figure 3 | BMC Bioinformatics

Figure 3

From: Predicting nucleosome positioning using a duration Hidden Markov Model

Figure 3

Comparing sensitivity of NuPoP predictions with existing methods. The sensitivity is assessed based on 20,471 well-defined nucleosomes from 454 nucleosomes reads. We call a prediction correct if a nucleosome is predicted within +/- k bp distance (X-axis) of a well-defined nucleosome (center to center) for k = 5 to 73. (a) Sensitivity plot of NuPoP (black) compared with N-score method (blue), MM/TE method (red), and the duration Hidden Markov Model using a uniform distribution on 1,...,500 (pink). The random expectation curve is not calculated because the total number of predictions varies in different methods. (b) Sensitivity plot of NuPoP (black) compared with MM/TE method (red) and random expectation (green) while controlling the total predictions to be the same as MM/TE method. Green: random expectation. (c) Sensitivity plot of NuPoP (black) compared with N-score method (red) and random expectation (green) while controlling the total predictions to be the same as N-score method.

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