set_antimalarial_resistance: Parameterise antimalarial resistance

In mrc-ide/malariasimulation: An individual based model for malaria

Parameterise antimalarial resistance

Description

Parameterise antimalarial resistance

Usage

set_antimalarial_resistance(
  parameters,
  drug,
  timesteps,
  artemisinin_resistance_proportion,
  partner_drug_resistance_proportion,
  slow_parasite_clearance_probability,
  early_treatment_failure_probability,
  late_clinical_failure_probability,
  late_parasitological_failure_probability,
  reinfection_during_prophylaxis_probability,
  slow_parasite_clearance_time
)

Arguments

parameters	the model parameters
drug	the index of the drug which resistance is being set, as set by the set_drugs() function, in the parameter list
timesteps	vector of time steps for each update to resistance proportion and resistance outcome probability
artemisinin_resistance_proportion	vector of updates to the proportions of infections that are artemisinin resistant at time t
partner_drug_resistance_proportion	vector of updates to the proportions of infections that are partner-drug resistant at time t
slow_parasite_clearance_probability	vector of updates to the proportion of artemisinin-resistant infections that result in early treatment failure
early_treatment_failure_probability	vector of updates to the proportion of artemisinin-resistant infections that result in slow parasite clearance
late_clinical_failure_probability	vector of updates to the proportion of partner-drug-resistant infections that result in late clinical failure
late_parasitological_failure_probability	vector of updates to the proportion of partner-drug-resistant infections that result in late parasitological failure
reinfection_during_prophylaxis_probability	vector of updates to the proportion of partner-drug-resistant infections that result in reinfection during prophylaxis
slow_parasite_clearance_time	single value representing the mean time individual's experiencing slow parasite clearance reside in the treated state

mrc-ide/malariasimulation documentation built on Oct. 14, 2024, 7:33 p.m.