Filtering criteria | SNP number | Genotype accuracy | Allele accuracy |
---|---|---|---|
None | 167,814 | 0.584 | 0.758 |
Known SNP in 1000G reference panel | 141,161 | 0.578 | 0.751 |
INFO score ≥ 0.1 | 156,835 | 0.591 | 0.771 |
INFO score ≥ 0.2 | 126,331 | 0.618 | 0.794 |
INFO score ≥ 0.3 | 84,932 | 0.656 | 0.815 |
INFO score ≥ 0.4 | 48,176 | 0.7 | 0.834 |
MAF ≥ 0.05 | 162,788 | 0.597 | 0.777 |
HWE p-value > 1e−9 | 84,237 | 0.595 | 0.695 |
HWE p-value > 1e−6 | 77,419 | 0.596 | 0.692 |
HWE p-value > 1e−3 | 65,561 | 0.599 | 0.687 |
HWE p-value > 1e−6 and INFO score ≥ 0.1 | 68,505 | 0.610 | 0.713 |
HWE p-value > 1e−6 and INFO score ≥ 0.2 | 55,972 | 0.646 | 0.751 |
HWE p-value > 1e−6 and INFO score ≥ 0.3 | 42,202 | 0.681 | 0.786 |
HWE p-value > 1e−6 and INFO score ≥ 0.4 | 28,773 | 0.715 | 0.818 |