ROC comparison with scaled data (GIGAS HapMap dataset, sample GIGAS_g_GAINmixHapMapAffy2_GenomeWideEx_6_A04_31266, hybridized to GenomeWideSNP 6.0 array). We have used the initial region of chromosome X, where there is a change from 2 to 1 copy, that appears in Figure10. For the analysis, we have included the SNPs that surrounds the copy number change (specifically the first 1000 SNPs, ordered by genomic position). There is no safety zone in the analysis. The SNPs located upstream the change point are considered to have total CNs larger than the SNPs downstream the change point. Again, for this particular sample (in the studied jump), NSA differentiates better than ACNE (in this case, “MTS”) and CN5 (in this case, “MCS”).