Diversification Rate Estimation and Fast Simulation of Reconstructed Phylogenetic Trees under Tree-Wide Time-Heterogeneous Birth-Death Processes Including Mass-Extinction Events

cettiidae | Cettiidae phylogeny from Alstroem et al. (2011) |

conifers | Conifer phylogeny from Leslie et al. (2012) |

mammalia | Dated family level mammalian phylogeny from Meredith et al.... |

tess.analysis | tess.analysis: Diversification rate estimation under an... |

tess.likelihood | tess.likelihood: Probability density of a tree under a... |

tess.likelihood.rateshift | tess.likelihood.rateshift: Probability density of a tree... |

tess.mcmc | tess.mcmc: Markov chain Monte Carlo simulation using a... |

tess.nTaxa.expected | tess.nTaxa.expected: The expected number of taxa at present... |

TESS-package | Diversification rate estimation and fast simulation of... |

tess.pathSampling | tess.pathSampling: Marginal likelihood estimation via... |

tess.plot.multichain.diagnostics | tess.plot.multichain.diagnostics: Plotting the mcmc... |

tess.plot.output | tess.plot.output: Plotting the output of a diversification... |

tess.plot.singlechain.diagnostics | tess.plot.mcmc.diagnostics: Plotting the single chain mcmc... |

tess.PosteriorPrediction | tess.PosteriorPrediction: Approximation of the posterior... |

tess.PosteriorPredictiveTest | tess.PosteriorPredictiveTest: Approximation of the posterior... |

tess.process.output | tess.process.output: Summarizing the output of a... |

tess.sim.age | tess.sim.age: Simulate a reconstructed tree for a given age... |

tess.sim.taxa | tess.sim.taxa.taxa: Simulate a reconstructed tree for a given... |

tess.sim.taxa.age | tess.sim.taxa.taxa.age: Simulate a reconstructed tree for a... |

tess.steppingStoneSampling | tess.steppingStoneSampling: Marginal likelihood estimation... |

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