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Conditional Random Fields for Fast, Large-Scale Genome-Wide Association Studies

Figure 4

Quantile-quantile (QQ) plots for the GAW14 data.

QQ plots of model negative p-value statistics obtained from our method as a function of expected negative p-values under the null hypothesis for the synthetic GAW14 data with (a) and real data (b). For comparison, negative p-value statistics obtained from a logistic regression that does not account for confounding factors and from Eigenstrat [4] are shown for the synthetic data with (c,e) and real data (d,f). Dotted red lines indicate 95% confidence bounds.

Figure 4

doi: https://doi.org/10.1371/journal.pone.0021591.g004