Bernadette-package |
Bayesian inference and model selection for stochastic epidemics |

age_distribution |
Country-specific age distribution |

age_specific_cusum_infection_counts |
Age distribution of cumulative reported infections for Greece |

age_specific_infection_counts |
Age distribution of new reported infections for Greece |

age_specific_mortality_counts |
Age distribution of new reported deaths for Greece |

aggregate_age_distribution |
Aggregate the age distribution matrix |

aggregate_contact_matrix |
Aggregate a contact matrix |

aggregate_ifr_react |
Aggregate the Infection Fatality Ratio |

Bernadette |
Bayesian inference and model selection for stochastic epidemics |

cauchy |
Prior distributions and options |

contact_matrices |
Contact matrices per country |

contact_matrix |
Country-specific contact matrix |

countries_un |
Names of countries with an available age distribution |

country_contact_matrices |
Names of countries for which a contact matrix is available |

exponential |
Prior distributions and options |

gamma |
Prior distributions and options |

itd_distribution |
Distribution of the time between infection and death |

normal |
Prior distributions and options |

plot_age_distribution |
Bar plot of the age distribution |

plot_contact_matrix |
Contact matrix heatmap |

plot_posterior_cm |
Plot the posterior contact matrix |

plot_posterior_infections |
Plot the posterior distribution of the infection counts |

plot_posterior_mortality |
Plot the posterior distribution of the mortality counts |

plot_posterior_rt |
Plot the estimated effective reproduction number trajectory |

plot_posterior_transmrate |
Plot the estimated age-specific transmission rate |

posterior_infections |
Summarize the posterior distribution of the infection counts |

posterior_mortality |
Summarize the posterior distribution of the mortality counts |

posterior_rt |
Estimate the effective reproduction number with the next generation matrix approach |

posterior_transmrate |
Estimate the age-specific transmission rate |

priors |
Prior distributions and options |

stan_igbm |
Bayesian diffusion-driven multi-type epidemic models via Stan |

stan_igbm.fit |
Bayesian diffusion-driven multi-type epidemic models via Stan |

student_t |
Prior distributions and options |

summary.stanigbm |
Summary of stanigbm posterior output |