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Table 3 Heterozygous mismatch (a) between each call set and GWAS genotypes at 378 on-target markers, and (b) between additional heterozygous genotypes in more complex algorithms and the GWAS markers

From: Comparing variant calling algorithms for target-exon sequencing in a large sample

All samples at 378 GWAS markers IBC PBC LDC LDC + F
(a) Number of heterozygous genotypes (hets) 276,761 293,730 298,220 298,531
Heterozygous mismatch 0.82% 0.38% 0.39% 0.32%
(b) Number of additional hets and heterozygous mismatch not in IBC 15,727 (0.85%) 17,937 (1.23%) 18,308 (0.47%)
not in PBC 3,113 (2.41%) 3,664 (0.71%)
not in LDC 1,145 (0.87%)