Figure 5

Differences in MAF with the nearest SNP on the BovineHD beadchip versus mean imputation reliability. Differences in MAF between imputed SNP and the nearest SNP on the BovineHD beadchip versus predicted LD $\left({\mathit{r}}_{\mathit{\text{dMAF}}}^2\right)$ and versus mean imputation reliability for imputation from the BovineHD panel to whole-genome sequence data on BTA1 for the three scenarios (S40, S60, and S80); SNPs were grouped in bins of 1000 SNPs with similar MAF differences.