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Table 3 Correlation between true and imputed genotypes from different imputation methods and programs

From: Enlarging a training set for genomic selection by imputation of un-genotyped animals in populations of varying genetic architecture

Imputation method

Scenario

LowLD_NoSel

LowLD_Sel

HighLD_NoSel

HighLD_Sel

Single_Step

0.76 ± 0.003

0.83 ± 0.038

0.88 ± 0.004

0.90 ± 0.013

Single_Step*

0.81 ± 0.003

0.86 ± 0.028

0.90 ± 0.003

0.93 ± 0.009

Two_Step

0.57 ± 0.008

0.74 ± 0.066

0.80 ± 0.006

0.85 ± 0.021

findhap.f90

0.52 ± 0.006

0.69 ± 0.065

0.74 ± 0.006

0.82 ± 0.030

AlphaImpute

0.83 ± 0.003

0.87 ± 0.024

0.86 ± 0.004

0.89 ± 0.010

  1. Values are the means ± standard deviations across 10 replicates.
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Genetics Selection Evolution

ISSN: 1297-9686