Description Usage Arguments Value Examples
Creates the age mixing matrix and the spatial kernel using the load_contact_mat
,
calc_dist_mat
, calc_dist_kernel
and calc_beta
functions.
1 2 | prep_simulation(spatial_data, R0 = 1.8, sigma = 1/2.6, age = TRUE,
k_params = NA)
|
spatial_data |
The spatial dataset 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. |
k_params |
A list containing the parameter values to be used for the kernel calculation. If omitted, will use the following default values: dist_c=87; alpha=0.95; p=6.6; p2=1.53; aa=35 |
Returns two matrix objects and one value for beta.
1 2 3 4 5 | #Create a spatial dataset:
test_data = raster(nrow=10, ncol=10, xmn=1, xmx=100000, ymn=1, ymx=100000)
values(test_data) = runif(100, 1, 1000)
prep_simulation(test_data)
|
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