TABLE 1.
AIL: type I error, power, coverage, and average estimates
| Mendel Full | Mendel F10 | Cartographer | True value | |
|---|---|---|---|---|
| Type I error | 0.83–3.39 | 4.92–9.60 | 25.6–33.8 | NA |
| Power | 96 | 46 | 51 | NA |
| Coverage | 92 | 39 | 48 | NA |
| Point 5 | ||||
| η | 3.9913 (0.2058) | 3.9661 (0.2355) | NA | 4.000 |
| p1 | 0.6486 (0.1183) | 0.3259 (0.0878) | NA | 0.667 |
| ɛ1 | 0.1910 (0.0487) | 0.1759 (0.0764) | 0.1869 | 0.200 |
| ɛ2 | −0.1910 (0.0487) | −0.1759 (0.0764) | −0.1869 | −0.200 |
|
1.0112 (0.1002) | 1.1494 (0.1721) | 0.9581 | 1.000 |
| Point 6 | ||||
| η | 3.9998 (0.2059) | 3.9465 (0.2344) | NA | 4.000 |
| p1 | 0.6492 (0.1176) | 0.3370 (0.0967) | NA | 0.667 |
| ɛ1 | 0.1932 (0.0477) | 0.1764 (0.0758) | 0.1781 | 0.200 |
| ɛ2 | −0.1932 (0.0477) | −0.1764 (0.0758) | −0.1781 | −0.200 |
|
1.0092 (0.0998) | 1.1458 (0.1746) | 0.9606 | 1.000 |
Type I error rates, power, and coverage are percentages; estimates and standard errors are averages. Type I error rates are confidence intervals based on 500 simulations under the null hypothesis; other table entries are based on 100 simulations under the alternative hypothesis. We count successful coverage when the equivalent one-LOD drop (4.6 LRT units) interval around a significant map point includes the QTL. The QTL is located at the midpoint of points 5 and 6. Parameter p1 is the reduced-dimension polygenic background parameter; η, the grand mean; ɛi, the QTL effect on strain i; and 
, the residual covariance. The Mendel estimates have average standard errors in parentheses. NA, not applicable.