Reference

Run functions
run_simulation()	Run the simulation
run_metapop_simulation()	Run a metapopulation model
run_simulation_with_repetitions()	Run the simulation with repetitions
Parameter functions
get_parameters()	Get model parameters
get_correlation_parameters()	Get default correlation parameters
set_parameter_draw()	Use parameter draw from the join posterior
set_equilibrium()	Set equilibrium
Demography functions
set_demography()	Parameterise variable deathrates
Mosquito species functions and parameters
set_species()	Parameterise the mosquito species to use in the model
set_carrying_capacity()	Parameterise custom baseline carrying capacity
calculate_carrying_capacity()	Calculate the vector carrying capacity
get_init_carrying_capacity()	Get initialised carrying capacity for each species
arab_params	Preset parameters for the An. arabiensis vector
fun_params	Preset parameters for the An. funestus vector
gamb_params	Preset parameters for the An. gambiae s.s vector
steph_params	Preset parameters for the An. stephensi vector
Intervention functions
Drug treatments
set_drugs()	Parameterise drugs to use in the model
set_clinical_treatment()	Parameterise clinical treatment
AL_params	Preset parameters for the AL drug
DHA_PQP_params	Preset parameters for the DHA-PQP drug
SP_AQ_params	Preset parameters for the SP-AQ drug
MDA and chemoprevention
set_mda()	Parameterise a Mass Drug Administration
set_pmc()	Parameterise a perennial malaria chemoprevention (PMC, formerly IPIi)
set_smc()	Parameterise a Seasonal Malaria Chemoprevention
peak_season_offset()	Calculate the yearly offset (in timesteps) for the peak mosquito season
Vaccines
set_mass_pev()	Parameterise a vaccine mass distribution strategy
set_pev_epi()	Parameterise a pre-erythrocytic vaccine with an EPI strategy
set_tbv()	Parameterise an TBV strategy
Vector control
set_bednets()	Parameterise a bed net strategy
set_spraying()	Parameterise an indoor spraying strategy
Non-user functions
CorrelationParameters	Class: Correlation parameters Describes an event in the simulation
create_pev_profile()	create a PEV profile
create_progress_process()	Create progress process
find_birthrates()	Calculate the birthrate for a population in equilibrium
parameter_draws	Parameter draws
parameterise_mosquito_equilibrium()	Parameterise total_M and carrying capacity for mosquitos from EIR
parameterise_total_M()	Parameterise total_M
rtss_booster_profile	RTS,S booster vaccine profile
rtss_profile	RTS,S vaccine profile