Create site parameters

Usage

site_parameters(
  interventions,
  demography,
  vectors,
  seasonality,
  age_group = c(0, 5, 15, 100) * 365,
  clinical_incidence = c(0, 5, 15, 100) * 365,
  severe_incidence = c(0, 5, 15, 100) * 365,
  prevalence = c(2, 10) * 365,
  parasite = "falciparum",
  eir = NULL,
  draw = NULL,
  overrides = list(),
  start_year,
  end_year,
  irs_adjust = 0.75
)

Arguments

interventions: Site intervention inputs
demography: Site demography inputs
vectors: Site vectors inputs
seasonality: Site seasonality inputs
age_group: Age breaks for population size outputs in days; default = c(0, 5, 15, 100) * 365
clinical_incidence: Age breaks for clinical incidence outputs in days; default = c(0, 5, 15, 100) * 365
severe_incidence: Age breaks for severe incidence outputs in days (pf only); default = c(0, 5, 15, 100) * 365
prevalence: Age breaks for prevalence outputs in days; default = c(2, 10) * 365
parasite: Can be "falciparum" or "vivax". For vivax, SMC, RTSS and PMC are not implemented
eir: Site baseline EIR
draw: malariasimulation parameter draw. Default NULL is best-fit parameter set
overrides: List of malariasimulation default parameter overrides
start_year: The year the simulation starts. This should be inclusive of any burn-in (which is recommended). For example, if the site file data started in year 2000 and I wanted to specify a 20 year burn-in I would set start_year to 1980. Interventions prior to the site file start year are assumed to be 0 coverage, and demography set to the same profile as the first site file entry.
end_year: The end year (inclusive) of the simulation
irs_adjust: A scalar adjustment to IRS coverage inputs to account for observed discrepancies between IRS impact in trial versus real-world implementation.

Value

A malariasimulation parameter list