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Fig. 2 | BMC Genomics

Fig. 2

From: Coupling high-throughput genetics with phylogenetic information reveals an epistatic interaction on the influenza A virus M segment

Fig. 2

Systematic identification of deleterious mutations. a The distributions of RF index in different replicates are shown as violin plots. The white circle at the center represents the median and the black box represents the interquartile range. RF index of < 0.001 was set to 0.001 here for visualization purpose. b The ratio of true positive rate (TPR) to false positive rate (FPR) for classifying deleterious mutations was evaluated across different cutoffs. All five replicates were used in this analysis. c The ratio of TPR to FPR for classifying deleterious mutations was computed as the number of replicate being used to generate RF index increases. b and c RF index max , RF index mean , and RF index median were analyzed. The red line represents RF index max . The grey line represents RF index mean . The black line represents RF index median . d The distributions of RF index max for silent mutations, nonsense mutations, and missense mutations are shown as histograms. The shaded area represents the range of RF index max where mutations were identified as deleterious. The percentage of mutations being identified as deleterious is indicated. e The composition of RF index max is shown as a pie chart

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