Allows the user to filter to more specific human outputs. Aggregated values for any human compartment as well as detected cases and clinical incidence may be requested for specific age, biting heterogeneity or intervention groups.
Usage
get_custom_output(
params,
sim,
output_variables,
ages = NULL,
biting_groups = NULL,
int_groups = NULL
)Arguments
- params
malariasimple input parameters
- sim
Output from malariasimple::run_simulation(params, full_output = TRUE)
- output_variables
Output variable of interest.
- ages
Age groups of interest (defined by the lower bracket)
- biting_groups
Biting groups of interest
- int_groups
Intervention groups of interest, given as indices into the model's intervention strata (1 = No intervention, 2 = Bednets, 3 = SMC, 4 = Bednets and SMC). These indices reflect the interventions currently supported by the model (ITNs and SMC); adding a new intervention type would require extending the intervention structure in `set_equilibrium()` and the odin model, after which the index meanings would change accordingly.
Examples
params <- get_parameters(
n_days = 50,
age_vector = c(0, 0.25, 0.5, 1, 3, 5, 10, 50) * 365) |>
set_equilibrium(init_EIR = 10)
sim <- run_simulation(params, full_output = TRUE)
custom_output <- get_custom_output(
params,
sim,
output_variables = c("n", "detect"),
ages = c(0, 0.5) * 365)