TABLE 2.
The comparison of prediction performance of the two methods.
| Val | Ref | Trait | Method | Acc | Regression coefficient | Genetic variance | Residual variance |
|---|---|---|---|---|---|---|---|
| LM | LM | NBA | GBLUP | 0.453 | 0.808 | 1.643 | 0.569 |
| LM | LM | NBA | GHBLUP_SNP1 | 0.453 | 0.807 | 1.642 | 0.569 |
| LM | Combined | NBA | GBLUP | 0.459 | 0.857 | 1.193 | 0.491 |
| LM | Combined | NBA | GHBLUP_SNP1 | 0.458 | 0.857 | 1.193 | 0.491 |
| LM | LM | TNB | GBLUP | 0.450 | 0.801 | 2.285 | 0.751 |
| LM | LM | TNB | GHBLUP_SNP1 | 0.450 | 0.801 | 2.284 | 0.751 |
| LM | Combined | TNB | GBLUP | 0.460 | 0.861 | 1.634 | 0.624 |
| LM | Combined | TNB | GHBLUP_SNP1 | 0.460 | 0.861 | 1.634 | 0.624 |
| XD | XD | NBA | GBLUP | 0.392 | 0.888 | 0.601 | 0.260 |
| XD | XD | NBA | GHBLUP_SNP1 | 0.392 | 0.888 | 0.601 | 0.260 |
| XD | Combined | NBA | GBLUP | 0.387 | 0.740 | 1.193 | 0.504 |
| XD | Combined | NBA | GHBLUP_SNP1 | 0.387 | 0.740 | 1.193 | 0.504 |
| XD | XD | TNB | GBLUP | 0.431 | 0.880 | 0.806 | 0.259 |
| XD | XD | TNB | GHBLUP_SNP1 | 0.431 | 0.880 | 0.806 | 0.259 |
| XD | Combined | TNB | GBLUP | 0.439 | 0.785 | 1.636 | 0.653 |
| XD | Combined | TNB | GHBLUP_SNP1 | 0.440 | 0.785 | 1.635 | 0.653 |
Val: validation set of population; Ref: reference set of population; Acc: the prediction accuracy; NBA: total number born alive; TNB: litter size; GHBLUP_SNP1: the method of treating a single SNP, as a haplotype.