Table 5.
Evaluation of the significant SNPs using either CRLMM or Birdseed calling algorithms from a total of 638,947 SNPs on chromosomes 1–22 that passed the process of QC
| p value cutoff | Birdseed only*, n (%) | CRLMM only*, n (%) | Both, n (%) |
|---|---|---|---|
| 0.1 | 19,692 (3.38) | 19,833 (3.40) | 40,408 (6.93) |
| 0.01 | 2,886 (0.49) | 2,819 (0.48) | 3,476 (0.59) |
| 0.001 | 328 (0.06) | 389 (0.07) | 323 (0.06) |
| 1.00−4 | 56 (0.01) | 27 (0.005) | 25 (0.004) |
| 1.00−5 | 12 (0.002) | 2 (0.0003) | 1 (0.0002) |
| 1.00−6 | 0 (0) | 1 (0.0002) | 0 (0) |
*
The genomic inflation factor λ was 1.019 for both calling algorithms.