Table 1 The SNP genotype densities used for the imputation analyses
Original SNP Panel Used to Genotype All AnimalsGenotypes Masked to Mimic LD SNP Panels in Offspring (%)Number of SNPs in LD SNP Panels in Offspring
High density (78 K)907836
99784
Medium density (25 K)902563
99256
  • The original SNP panels were either high density (HD) or medium density (MD), which were masked in a (proportion of) the offspring to mimic genotyping with various low density panels.