These figures show the DNA copy number, the fraction of B allele and the LH values for chromosome 8 in sample GSM318736 from the Prostate Cancer dataset hybridized to Affymetrix Mapping250K_Nsp. Heterozygous SNPs tend to have larger LH values (closer to 1) than homozygous SNPs (LH values closer to 0). The thick gray line over the LH figure is the segmented LH value obtained from CBS. It has two regions. One which corresponds to the normal zone (CN = 2) and the other to both deleted and amplified regions. The algorithm does not distinguish between the deleted and the amplified zone. This fact is not a concern since it differentiates the normal regions from the aberrated ones, which is the objective here.