Antimalarial Drug Resistance Simulation

This repository contains the figures output and source code for an individual-based simulation that was a part of the scientific publication titled "Assessing emergence risk of double-resistant and triple-resistant genotypes of Plasmodium falciparum" published in Nature Communications in January 2024.

Authors: Eric Zhewen Li, Tran Dang Nguyen, Thu Nguyen-Anh Tran, Robert J Zupko, Maciej F Boni

DOI: TBD

Repository Structure

figures: Contains the figures generated from the simulation output.

mdr_analysis: Contains Python scripts for analyzing the simulation output.

source_code: Contains the source code for the individual-based simulation.

How to Use

To reproduce or further explore the simulation described in the publication, follow these steps:

Clone the repository to your local machine:

git clone https://github.com/bonilab/malariaibm-generation-of-MDR-mutants.git

The README file in the source_code/ directory contains detailed information on how to build and run the simulation. If you require additional assistance or have questions, please feel free to contact the corresponding author. Execute the simulation code using your preferred environment or tools. Be sure to refer to the publication and any additional documentation for specific instructions on running the simulation.

Citation

If you use or refer to the results, code, or data from this repository in your research or work, please cite the original publication:

**TBD**

For questions or inquiries, please contact the corresponding author or create an issue in this repository.

Notes about mdr_analysis/ folder

Due to file size limit, the simulation output files are zipped under GitHub release. To generate the figures in our paper, please download simulation_outputs.zip file and upzip them to mdr_analysis/simulation_outputs/