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Table 2 Accuracy of Imputation from 50 K to sequence, with either no clustering or different clustering algorithms used to determine reference population for imputation from 50 K to 777 K

From: Novel methods for genotype imputation to whole-genome sequence and a simple linear model to predict imputation accuracy

Scenario

Overall R2

Time/Animal

Concordance

Concordance MAF < 0.05

All

0.819

0:03:47

0.934

0.974

ADMIXTURE

0.810

0:03:48

0.931

0.973

PLINK Genotype

0.807

0:03:37

0.930

0.973

PLINK Haplotype

0.810

0:03:44

0.931

0.973

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BMC Genomic Data

ISSN: 2730-6844

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