Table 1.

Comparison of high-coverage (400 @ 30×) and low-coverage (3000 @ 4×) sequencing design given the same total sequencing effort

% Discovery is the percentage of SNPs detected according to population MAF (MAF defined among 45,000 sequenced chromosomes). Overall genotypic concordance is the percentage agreement between the inferred and simulated (i.e., true) genotypes. Heterozygote concordance is the percentage agreement between the simulated (i.e., true) heterozygous genotypes and their inferred counterparts. Dosage r² is the squared correlation between the inferred allele dosages (ranging from 0 to 2) and true dosages. Information content, defined as n × r², measures the overall information content across all n sequenced individuals.