run_deterministic_comparison: Run Deterministic model comparison

In mrc-ide/squire: SEIR transmission model of COVID-19

Run Deterministic model comparison

Description

Create a deterministic model and compare to data

Usage

run_deterministic_comparison(
  data,
  squire_model,
  model_params,
  model_start_date = "2020-02-02",
  obs_params = list(phi_cases = 0.1, k_cases = 2, phi_death = 1, k_death = 2, exp_noise
    = 1e+06),
  forecast_days = 0,
  save_history = FALSE,
  return = "ll"
)

Arguments

data	to fit to.
squire_model	A squire model to use
model_params	Squire model parameters. Created from a call to one of the parameters_<type>_model functions.
model_start_date	Date to run model simulations from
obs_params	List of parameters used for comparing model to data
forecast_days	Days ahead to include in output
save_history	Whether to save full history. Default = FALSE
return	Set return depending on what is needed. 'full' and "sample" gives the entire output, 'll' gives the log-likelihood

Value

Results from particle filter

mrc-ide/squire documentation built on Sept. 10, 2022, 1:11 a.m.