A new model calling procedure for Illumina BeadArray data

BMC Genomic Data

Table 3 Comparisons of call rates and accuracy on HapMap samples for three SNP groups

Class	Prop	Item	GenCall	GenoSNP	M-D
g ₁	88.60 %	Call rate	96.59	99.13	99.77
		Accuracy	96.40	98.44	99.31
g ₂	4.03 %	Call rate	97.62	99.56	99.75
		Accuracy	97.53	99.45	99.59
g ₃	7.37 %	Call rate	96.60	99.14	99.70
		Accuracy	96.45	98.71	99.40

Note: M-D: a new model calling procedure; Call rate: the percentage of valid genotypes; Accuracy: the percentage of consistent genotype between each calling method and the gold standard; Class: indicates the three SNPs categories, such as: g ₁, g ₂ and g ₃; Prop: indicates the percentage of SNPs which belong to three groups, respectively

ISSN: 2730-6844