Each panel shows a series of ROC curves derived from different stages of CARAT using samples with X chromosome alterations. Stage 1: Single point analysis that contains no probe selection, no intensity adjustment on fragment length and GC content; and no intensity adjustment on the reference mean. Stage 2: Stage 1 plus probe selection. Stage 3: Stage 2 plus intensity adjustment on the fragment length and GC content and intensity adjustment on the reference mean. Stage 4: Stage 3 plus kernel smoothing with a 100 kb window. Stage 5: Stage 4 plus genome partitioning using the regression tree. This figure should be viewed in conjunction with Table 2 which summarizes the area under the ROC curves.