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Table 1 Call rate and genotyping error for two SNPs in high quality

From: Genotype determination for polymorphisms in linkage disequilibrium

  call rate (%) error rate (%)
r 2 0.802 0.500 0.304 0.802 0.500 0.304
M1 99.75 99.75 99.75 0.05 0.05 0.05
M2 99.87 99.75 99.75 0.06 0.05 0.05
M3 99.87 99.82 99.80 0.04 0.05 0.05
  1. M1: the one-SNP-at-a-time method; M2: imputation based on estimated genotypes from M1 and LD structure; M3: our method that jointly analyzes the signal of two SNPs.