prep_simulation_shp: Performs pre-calculations necessary for the simulation of an...

In qleclerc/efficientspatial: Efficient Spatial Modelling of Epidemics

Description

Creates the age mixing matrix and the spatial kernel using the load_contact_mat, calc_dist_mat_shp, calc_dist_kernel_shp and calc_beta_shp functions.

Usage

prep_simulation_shp(shp, pop_data, R0 = 1.8, sigma = 1/2.6, age = TRUE)

Arguments

shp	The Shapefile object containing the population structure.
pop_data	The dataframe containing the population data
R0	The desired R0 for the epidemic
sigma	The desired recovery rate for the epidemic
age	Logical. If TRUE, the simulation will assume four distincts age groups in the population (default). If FALSE, the simulation will assume homogeneous mixing between age groups in the population.

Value

Returns one dataframe, two matrix objects and one value for beta.

qleclerc/efficientspatial documentation built on May 23, 2019, 1:24 p.m.