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Table 4 Comparisons of call rate and concordance of whole SNPs among GenCall, GenoSNP, M3 and M3-S

From: M3-S: a genotype calling method incorporating information from samples with known genotypes

Algorithm 1 Algorithm 2 Call rate (%) Concordance (%)
   Algorithm 1 Algorithm 2  
GenCall GenoSNP 96.71 99.12 99.71
GenCall M3 96.71 99.71 99.85
GenCall M3-S 96.71 99.56 99.85
GenoSNP M3 99.12 99.71 99.41
GenoSNP M3-S 99.12 99.56 99.45
M3 M3-S 99.71 99.56 99.57
  1. Note: The unit of Call Rate and Concordance Rate is percentage %; M3-S: M3 incorporating samples with known genotypes; Algorithm: four algorithms in this table, that is, GenCall, GenoSNP, M3 and M3-S