Fig. 7
From: A comparison of BeadChip and WGS genotyping outputs using partial validation by sanger sequencing
Quality metrics calculation for the initial and the “reduced confusion” matrices. Each metric is calculated as a ratio of blue elements to orange-outlined elements; A/A, A/B, B/B, A/C, B/C, C/C — diploid genotypes observed in data; A — reference allele, B and C — alternative alleles; N/N — any diploid genotype category (A/A, A/B, B/B, A/C, B/C, C/C). TRUTH — a call set produced by an orthogonal method (comparator), TEST — a call set produced by a test method