Figure 2

shows the visual output of the comparative analysis of KC-SMARTR, run on the breast cancer aCGH dataset from Chin [5]comparing the HER2-positive group (red) to the HER2-negative group (black). A kernel width of 1 Mb and an FDR cut-off of 0.01 were used. The chromosome 17q amplicon, characteristic for HER2-positive tumors, stands out clearly (the significant region as determined by the SNR algorithm is indicated as a grey shaded area).