Fig. 2
Distribution of MAF and imputation accuracy. (a) Percentage of SNPs in each MAF class for 55 K array data for 3607 birds, WGS data for 230 birds, and imputed WGS data for 3607 birds after imputation and post-imputation filtering. Post-imputation SNP filtering criteria: allelic R2 ≥ 0.9 and MAF ≥ 0.05. The imputation accuracy for imputed WGS data for 3607 birds after imputation according to MAF (b) and per chromosome (c) is also shown. MAF represents minor allele frequency