setup_modelprior: function estimate a value for the model prior in order to...

In mrc-ide/YFestimation: Estimate ecological niche and two transmission models for yellow fever in Africa.

Description

function estimate a value for the model prior in order to have even mixing. Note, this is based on initial parameter values so may need adjusting.

Usage

setup_modelprior(pars_ini, seroout, foi_const_surv, vc_agg3d, pop_agg3d,
  pop_moments_agg, dim_year, dim_age, p_at_survey, P_tot_survey,
  inc_v3d_agg, parameter_type, ign)

Arguments

pars_ini	vector of initial parameters for seroprevalence
seroout	processed serology data
foi_const_surv	vector of additional foi for each survey (R0 model)
vc_agg3d	aggregated vaccination array
pop_agg3d	aggregated population array
pop_moments_agg	population moments aggregated
dim_year	years of interest
dim_age	ages of interest
p_at_survey	population proportion at time of serological survey
P_tot_survey	total population at time of serological survey
inc_v3d_agg	the incidence of vaccination (aggregated)
parameter_type	indexing for the different types of parameters
ign	indices of surveys to ignore in the likelihood- useful for bug hunting

Value

Estimate of log model prior for Foi model

mrc-ide/YFestimation documentation built on March 13, 2021, 1:40 p.m.