This repository contains Python code to replicate the figures presented in the manuscript titled 'Echinocandin heteroresistance causes prophylaxis failure and facilitates breakthrough Candida parapsilosis infection.' The preprint of this manuscript is available at https://www.medrxiv.org/content/10.1101/2022.05.29.22275734v2.
Folders beginning with 'Figure' or 'EDFigure' contain code to reproduce corresponding figure panels in the manuscript. Python code is written in Jupyter notebooks and included in 'main.ipynb'. Data used by the code is available in the 'data' subfolder, and output files are directed to the 'output' subfolder.
All code has been tested using Python 3.8.5 on macOS Ventura 13.6.6.
For further instructions, please refer to the README file within each specific folder (if available) and comments in Juptyer notebook.