expand_params_mistry: Expand parameter list to include age structure using Mistry...

In bbolker/McMasterPandemic: Pandemic Model

Expand parameter list to include age structure using Mistry et al. data

Description

Expand parameter list to include age structure using Mistry et al. data

Usage

expand_params_mistry(
  params,
  transmissibility = 1,
  province = "ON",
  contact_rate_setting = mk_contact_rate_setting(),
  age_cat = NULL
)

Arguments

params	baseline parameters loaded from one of the parameter files (??)
transmissibility	probability of transmission upon contact with an infected (beta0 = transmissibility * contact_rate)
province	province for which to construct the matrix (if NULL, make a Canada-wide contact matrix)
contact_rate_setting	named list containing setting-specific contact rates (in units of average contacts in the given setting per individual of age i with individuals of age j per day)
age_cat	(optional) list of age groups to aggregate ages in; use 'mk_agecats()' to generate (must start with 0 and end with 84); default is single ages starting with 0 and up to 83, then a single 84+ category

Value

an object of class 'params_pansim'

See Also

Other classic_macpan: add_d_log(), add_updated_vaxrate(), aggregate_agecats(), calibrate_comb(), calibrate(), check_age_cat_compatibility(), check_contact_rate_setting(), col_multiply(), condense_age(), condense_params_vax(), condense_state(), condense_vax(), dev_is_tikz(), do_step(), expand_params_age(), expand_params_desc_age(), expand_params_desc_variant(), expand_params_desc_vax(), expand_params_variant(), expand_params_vax(), expand_state_age(), expand_state_vax(), expand_stateval_testing(), fix_pars(), fix_stored(), forecast_ensemble(), forecast_sim(), getData(), get_GI_moments(), get_Gbar(), get_R0(), get_doses_per_day(), get_evec(), get_kernel_moments(), get_opt_pars(), get_r(), invlink_trans(), make_betavec(), make_beta(), make_jac(), make_ratemat(), make_state(), make_test_wtsvec(), make_vaxrate(), mk_Nvec(), mk_agecats(), mk_contact_rate_setting(), mk_mistry_Nvec(), mk_pmat(), mk_vaxcats(), mle_fun(), non_expanded_states, rExp(), read_params(), repair_names_age(), restore(), run_sim_ageify(), run_sim_break(), run_sim_loglin(), run_sim_mobility(), run_sim_range(), run_sim(), show_ratemat(), testify(), texify(), trans_state_vars(), update_contact_rate_setting(), update_foi(), update_params_mistry(), vis_model(), write_params()

Examples

params <- read_params("PHAC_testify.csv")
age_cat <- mk_agecats(min = 0, max = 80, da = 10)
expand_params_mistry(params = params, province = "ON", age_cat = age_cat)

bbolker/McMasterPandemic documentation built on Aug. 25, 2024, 6:35 p.m.