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Table 4 Comparisons of Hardy-Weinberg Equilibrium test among GenCall, GenoSNP and M-D

From: A new model calling procedure for Illumina BeadArray data

Population

Num-Sample

Algorithm

# of failed SNPs

AA I

2005

GenCall

224

  

GenoSNP

907

  

M-D

422

AA II

83

GenCall

20

  

GenoSNP

254

  

M-D

80

EA I

867

GenCall

486

  

GenoSNP

1024

  

M-D

643

EA II

158

GenCall

40

  

GenoSNP

348

  

M-D

133

  1. Note: AA I: African-Americans not of Hispanic Origin; AA II: African-Americans of Hispanic Origin; EA I: European Americans not of Hispanic Origin; EA II: European Americans of Hispanic Origin; Num-Sample: the number of subjects within each population; Algorithm: three algorithms in this table, that is, GenCall, GenoSNP, and M-D; # of failed SNPs: the number of SNPs fail the Hardy-Weinberg Equilibrium test within each population