cd.fit |
An S4 Class that stores a fitted coarse data object |

cd.fit-class |
An S4 Class that stores a fitted coarse data object |

cd.fit.mcmc |
An S4 Class that stores a MCMC fit coarse data object |

cd.fit.mcmc-class |
An S4 Class that stores a MCMC fit coarse data object |

dgammaOff1 |
Function that calculates dgamma with a offset of 1 (i.e., 1 is equivalent to 0) |

dic.fit |
censored survival data |

dic.fit.mcmc |
Fits the distribution to the passed-in data using MCMC as implemented in MCMCpack. |

EMforCFR |
A function to estimate the relative case fatality ratio when reporting rates are time-varying and deaths are lagged because of survival time. |

exp.win.lengths |
Exposure window lengths from an influenza outbreak at a NYC school |

fluA.inc.per |
Coarse incubation period data for influenza A |

generate.coarse.data |
Simulate incubation period analyses with coarse data |

get.obs.type |
Tries to guess the observation types (SIC, DIC, or exact). |

logLik |
Get the log-likelihood value of a 'cd.fit' or 'cd.fit.mcmc' object |

logLik-method |
Get the log-likelihood value of a 'cd.fit' or 'cd.fit.mcmc' object |

loglikhd |
Negative log likelihood for a dataset of interval-censored data, given a distribution and its parameters. |

mcmc.erlang |
Does a metropolis hastings for the Erlang distribution |

mcmcpack.ll |
posterior log likelihood function to pass to MCMCpack sampler |

nycH1N1 |
Incubation period data from New York City Public Schools, 2009 H1N1 influenza outbreak |

pgammaOff1 |
Function that calculates pgamma with a offset of 1 (i.e., 1 is equivalent to 0) |

plot |
Plots the estimated survival function with an option to plot the posterior draws or bootstraps behind the fit |

plot-method |
Plots the estimated survival function with an option to plot the posterior draws or bootstraps behind the fit |

precision.simulation |
Simulate incubation period analyses with coarse data |

precision.simulation.coarse |
Simulate incubation period analyses with coarse data |

precision.simulation.exact |
Simulate incubation period analyses with coarse data |

simulated.outbreak.deaths |
Simulated case and death reports from a fictional outbreak |