This repository contains jupyter notebook scripts to reproduce all the figures presented in the article "Stochastic modeling of a three-dimensional glycogen granule and impact of the branching enzyme on the structure"
Some functions will be re-defined in some scripts while there could be already define in the main class from glycogen_module.py. It allows some flexibility in the notebooks and the plots.
The parameters file parameters.json, is required to initiate a glycogen granule. Although most of the time prameters will be set inside the different scripts.
to add:
- required packages
- description of 'glycogen_structure' object and methods