Figure 2
Accuracy of genome sequence-resolution imputation.
Scatter plots showing imputation accuracy (minor allele sensitivity) of imputed sequence variants relative to minor allele frequency (2A) and allelic R2 (2B) values. These comparisons used 790 SNPs common to both imputed genome and RNA-seq-derived genotype sets, where variants called from the RNA-seq alignments were used to assess sequence imputation accuracy in these 406 animals. Red variants shown in panel 2A represent the subset of real (i.e. not imputed) genotypes in the genome sequence-derived dataset (70 SNPs from the Illumina BovineHD chip), giving an indication of the accuracy of variant calls derived from the RNA-seq-alignments.
