run_metapop_simulation: Run a metapopulation model
In mrc-ide/malariasimulation: An individual based model for malaria

run_metapop_simulation

R Documentation

Run a metapopulation model

Description

Run a metapopulation model

Usage

run_metapop_simulation(
  timesteps,
  parameters,
  correlations = NULL,
  mixing_tt,
  export_mixing,
  import_mixing,
  p_captured_tt,
  p_captured,
  p_success
)

Arguments

`timesteps`	the number of timesteps to run the simulation for (in days)
`parameters`	a list of model parameter lists for each population
`correlations`	a list of correlation parameters for each population (default: NULL)
`mixing_tt`	a vector of time steps for each mixing matrix
`export_mixing`	a list of matrices of coefficients for exportation of infectivity. Rows = origin sites, columns = destinations. Each matrix element describes the mixing pattern from destination to origin. Each matrix element must be between 0 and 1. Each matrix is activated at the corresponding timestep in mixing_tt
`import_mixing`	a list of matrices of coefficients for importation of infectivity.
`p_captured_tt`	a vector of time steps for each p_captured matrix
`p_captured`	a list of matrices representing the probability that travel between sites is intervened by a test and treat border check. Dimensions are the same as for `export_mixing`
`p_success`	the probability that an individual who has tested positive (through an RDT) successfully clears their infection through treatment