Figure 5

ROC evaluation (Chr 2). (a) Left panels: The region 108.0-140.0 Mb on Chr 2 in tumor-normal sample TCGA-23-1027 has a change point at approximately 124.0 Mb, which separates a normal diploid state from a gain. 1,171 loci in each of these two states are used for the evaluation. All 79 loci in the safety region have been excluded. (b) Right panels: The region 125.0-157.0 Mb on Chr 2 in tumor-normal sample TCGA-23-1027 has a change point at approximately 141.0 Mb, which separates a normal diploid state from a gain. 986 loci in each of these two states are used for the evaluation. All 64 loci in the safety region have been excluded. The top three rows show the total CNs (C), and the raw (ρ) and normalized () heterozygous DHs, respectively. A 1000 kb safety region (dashed gray frame) around the change point is excluded from the evaluation. The full resolution data points are colored black and the binned (H = 4) ones are colored blue. The three panels in the bottom row show the ROC performance of the TCNs (dotted green) and the raw (dashed black) and normalized (solid red and dot-dashed blue for naive and population-based genotypes, respectively) DHs at the full resolution (H = 1; no binning), and after binning in non-overlapping windows of size H = 2 and H = 4 SNPs, respectively.