Schematic overview of FDR calculation method.

<p><b>A</b> Concept of FDR calculation which relies on the availability of a normal tissue replication experiment. <b>B</b> Examples of single nucleotide variations found: A somatic mutation found in all three B16 samples (left), a non-somatic mutation found in all B16 and black6 samples (middle) and a mutation found in only one black6 sample (right); this last variation would cause a raise in the FDR for all somatic mutations with a comparable or worse quality. <b>C</b> Process to generate FDRs for a set of somatic mutations and visualize the results. The FDR distribution is visualized as an average estimated ROC curve with the grey bars giving the 95% confidence interval for the mean in both dimensions at uniformly sampled positions. The mean was obtained from the distribution of estimated ROC curves of the FDRs for all possible 18 combinations of reference data sets (see text).