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Run Bayesian Transmission MCMC

runMCMC.Rd

Run Bayesian Transmission MCMC

Usage

runMCMC(data, MCMCParameters, modelParameters, verbose = FALSE)

Arguments

data

Data frame with columns, in order: facility, unit, time, patient, and event type.

MCMCParameters

List of MCMC parameters.

modelParameters

List of model parameters, see .

verbose

Print progress messages.

Value

A list with the following elements:

  • Parameters the MCMC chain of model parameters

  • LogLikelihood the log likelihood of the model at each iteration

  • MCMCParameters the MCMC parameters used

  • ModelParameters the model parameters used

  • ModelName the name of the model

  • nstates the number of states in the model

  • waic1 the WAIC1 estimate

  • waic2 the WAIC2 estimate

  • and optionally (if MCMCParameters$outputfinal is true) FinalModel the final model state.