Table 4.
Inbreeding-Coefficient Estimates with REAP and the Homogeneous-Population Estimator
| Population Structure |
Inbreeding Coefficient |
||
|---|---|---|---|
| True Inbreeding Coefficient | REAP Estimate (SD) | Homogeneous Estimate (SD) | |
| 1 | 0 | −0.002 (0.018) | 0.094 (0.017) |
| 2 | 0 | 0.007 (0.016) | 0.056 (0.023) |
| 3 | 0 | −0.007 (0.019) | 0.010 (0.031) |
Inbreeding coefficients were estimated with the REAP inbreeding-coefficient estimator from Equation 5 and the homogeneous-population inbreeding-coefficient estimator from Equation 6 for population-structure settings 1, 2, and 3. Results given in the table are the average of the inbreeding-coefficient estimates (and SDs) for each estimator calculated with 10,000 simulated random SNPs. The following abbreviations are used: REAP, relatedness estimation in admixed populations; and SD, standard deviation.