metropolis_step_overdispersion: Performs a single Metropolis step to update overdispersion...

In ben18785/incidenceinflation: Estimate R0 Given Case Reporting Delays

Performs a single Metropolis step to update overdispersion parameter

Description

Performs a single Metropolis step to update overdispersion parameter

Usage

metropolis_step_overdispersion(
  overdispersion_current,
  logp_current,
  cases_history_rt_df,
  serial_parameters,
  prior_overdispersion_parameter,
  overdispersion_metropolis_sd
)

Arguments

overdispersion_current	current overdispersion parameter value (must exceed 0)
logp_current	current log-probability value from previous update
cases_history_rt_df	a tibble with three columns: 'time_onset', 'cases_true' and 'Rt'
serial_parameters	named list of 'mean' and 'sd' of gamma distribution characterising the serial interval distribution
prior_overdispersion_parameter	a named list with elements: 'mean' and 'sd' denoting the mean and sd of a gamma distribution
overdispersion_metropolis_sd	the standard deviation of the proposal kernel

Value

a named list with two elements: 'overdispersion', an overdispersion parameter value and 'logp', the log-probability corresponding to the returned parameter set

ben18785/incidenceinflation documentation built on Feb. 8, 2024, 2:36 a.m.