Figure 3
From: Major copy proportion analysis of tumor samples using SNP arrays
The LOH, copy number, genotype and MCP data views of chromosome 18 of sample H1395t. (A) LOH from paired analysis, similar to Figure 2A. (B) Raw copy numbers. (C) Genotype calls. The red, yellow, blue and white colors represent genotype AA, AB, BB and No Call. (D) Inferred MCP, similar to Figure 2B. The blue curves displayed on the right in the gray boxes represent: (A) inferred LOH probability, (B) raw copy number, (C) raw major allele proportion (MAP), computed as Max(RA, RB)/(RA + RB), and (D) inferred MCP. Comparing the two curve in C and D, we can visually assess how the HMM infers MCP at regions of mixed homozygous and heterozygous genotypes.