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Table 2 Imputation accuracy of SNP on chromosome 12 measured by IA or by R 2

From: Genotype imputation accuracy in a F2 pig population using high density and low density SNP panels

Scenario

Genotype design

Accuracy of imputation

Grandparents

Parents

Progeny

IA

R 2

1

HD

HD

LowD

0.962

0.884

2

HD

LowD

LowD

0.833

0.408

  1. Comparison of two measures of accuracy of imputation calculated using experimental data (tagSNP panel = 30 SNP), under two situations: 1) F0 and F1 at high density (HD), F2 at low density (LowD), 2) F0 at HD, F1 and F2 at LowD.