Maxhap | SequenceLD | Rholike | Average | Composite | |||||||
---|---|---|---|---|---|---|---|---|---|---|---|

kb | ρ/kb | RMSE | g | RMSE | g | RMSE | g | RMSE | g | RMSE | g |

2 | 1 | 1.70 | 0.39 | 1.41 | 0.38 | 1.26 | 0.29 | 1.26 | 0.43 | 1.31 | 0.38 |

2 | 4 | 1.43 | 0.57 | 1.29 | 0.62 | 1.20 | 0.44 | 1.15 | 0.66 | 1.18 | 0.64 |

2 | 16 | 0.68 | 0.60 | 0.60 | 0.70 | 0.66 | 0.59 | 0.60 | 0.74 | 0.61 | 0.70 |

10 | 0.81 | 0.64 | 1.02 | 0.43 | 1.05 | 0.56 | 0.79 | 0.64 | 0.93 | 0.59 | |

10 | 1 | 0.58 | 0.86 | 0.57 | 0.80 | 0.47 | 0.90 | 0.50 | 0.89 | 0.45 | 0.91 |

10 | 4 | 0.37 | 0.93 | 0.32 | 0.95 | 0.23 | 0.98 | 0.25 | 1.00 | 0.25 | 0.99 |

25 | 1 | 0.36 | 0.73 | 0.33 | 0.71 | 0.31 | 0.85 | 0.28 | 0.82 | 0.27 | 0.86 |

MLEs of three different approximate-likelihood curves, the average of these three MLEs, and the MLE of a composite-log-likelihood curve calculated as a weighted average of the approximate log-likelihood curves are shown. Accuracy is measured by the root mean square (relative) error (RMSE) and by

*g*, the proportion of estimates within a factor of 2 (for 2- and 10-kb data) or 1.5 (for 25-kb data). All simulations were under a neutral coalescent model with constant population size, random mating, and θ = 1/kb.