README.md

In SwissTPH/VivaxModelR: Simulation of Plasmodium Vivax dynamics

VivaxModelR

Simulations and calculations on a compartmental model for Plasmodium Vivax dynamics.

This code is associated with the following manuscripts:

• Champagne C., Gerhards M. , Lana J., Le Menach A., Pothin E. "Quantifying the impact of interventions against Plasmodium vivax malaria: a model for country-specific use", Epidemics 2024. The version used in this manuscript corresponds to the main version. It includes various control interventions, as detailed in the user vignette. The scripts necessary to reproduce the manuscript figures are situated under demo/figures_SimulatedExample.

• Champagne C., Gerhards M. , Lana J., García Espinosa B., Bradley C., González O., Cohen J.,Le Menach A., White M., Pothin E. "Using observed incidence to calibrate the transmission level of a mathematical model for Plasmodium vivax dynamics including case management and importation", Mathematical Biosciences, 2021. The version used in the manuscript corresponds to released version v1.0.1, and only focuses on case management interventions, without delayed access to treatment. The scripts necessary to reproduce the manuscript figures are situated under demo/figures_UsingObservedIncidence (to be used with version v1.0.1).

The package can be installed using the devtools package:

library(devtools)  
install_github("SwissTPH/VivaxModelR")

The vignette presenting how to use the package is available here. A simplified version of the package without delayed access to treatment is available here. A quick description for developers of the scripts in the package is available here.

SwissTPH/VivaxModelR documentation built on Feb. 14, 2024, 11:27 a.m.