Fig. 7

A Correlations between genomic estimated breeding values (GEBVs) derived from Oxford Nanopore Technologies (ONT) sequence data and GEBVs derived from bovine HD SNP array genotypes for body weight (BW). ONT-derived GEBVs were imputed using QUILT and GLIMPSE and calculated across five coverages and five SNP panels. The different SNP reference panels were created using minor allele frequency (MAF) filters to reduce the size of the panels down from whole genome sequence SNP. The largest panel had 48,203,338 SNP and was referred to as the No MAF filter panel, while the smallest panel was referred to as the bovine high definition (HD) SNP panel and featured only the 641 k SNP used to calculate the GEBVs. SNP array genotypes were from the Illumina bovine HD SNP array. The correlation for each trait between GEBVs calculated from the 35 k GGP SNP array imputed to 700 k and GEBVs calculated from the Illumina bovine HD SNP array are indicated by the dashed line. The colour of each bar indicates how well the ONT derived GEBV accuracies compare to the 35 K SNP array accuracies. Error bars indicate 95% confidence interval of the Pearson correlation. B Genomic prediction bias for body weight (BW), defined as \({\beta }_{2}-1\), where \({\beta }_{2}\) is the regression coefficient of the bovine HD SNP array genomic estimated breeding value (GEBV) ~ Oxford Nanopore Technologies GEBV derived using QUILT and GLIMPSE. The prediction bias of the HD SNP array GEBVs ~ 35 k SNP array GEBVs are displayed for each trait by the dotted lines, where the colour of the line corresponds to the colour of the trait in the figure legend