Figure 5

Comparison of imputation quality of imputed SNPs. The quality score columns list three SNP minor allele frequency (MAF) categories: very rare (0.001 < MAF < 0.05), rare (0.05 < MAF <0.1), and common (0.1 < MAF < 0.5). The results under the missing thresholds of 0.03 and 0.01 showed the similar patterns to those under the threshold of 0.05, and thus are not shown. Bold indicates P < 0.05 in the Welch two sample t-test between the missing rate of 0.05 (black line) and the other thresholds.