Table 2 Type I error of three models via 1500 simulations at α = 0.05
Sample Size | Minor Allele | Model Type | ||
|---|---|---|---|---|
| Â | Â | hapcc | htr | HAPGLM |
50 | q = 0.1 | 0.097(0.079-0.117) | 0.048(0.036-0.063) | 0.048(0.036-0.063) |
| Â | q = 0.3 | 0.032(0.022-0.045) | 0.039(0.028-0.053) | 0.044(0.032-0.059) |
| Â | q = 0.5 | 0.029(0.020-0.041) | 0.041(0.030-0.055) | 0.047(0.042-0.071) |
100 | q = 0.1 | 0.036(0.025-0.049) | 0.035(0.024-0.048) | 0.047(0.035-0.062) |
| Â | q = 0.3 | 0.031(0.021-0.044) | 0.072(0.057-0.090) | 0.043(0.031-0.057) |
| Â | q = 0.5 | 0.042(0.030-0.056) | 0.047(0.035-0.062) | 0.051(0.038-0.067) |
200 | q = 0.1 | 0.031(0.021-0.044) | 0.026(0.017-0.038) | 0.055(0.042-0.071) |
| Â | q = 0.3 | 0.051(0.038-0.067) | 0.033(0.023-0.046) | 0.047(0.035-0.062) |
| Â | q = 0.5 | 0.040(0.029-0.054) | 0.067(0.052-0.084) | 0.037(0.026-0.051) |
400 | q = 0.1 | 0.035(0.024-0.048) | 0.037(0.026-0.051) | 0.042(0.030-0.056) |
| Â | q = 0.3 | 0.047(0.035-0.062) | 0.028(0.019-0.040) | 0.041(0.030-0.055) |
| Â | q = 0.5 | 0.028(0.019-0.040) | 0.041(0.030-0.055) | 0.042(0.030-0.056) |