This is the judging release by the iGEM Team Heidelberg 2021. For installation please use the provided environment.yml. This file includes all of the necessary packages for the provided code and is compatible with several package managers e.g. Anaconda. It only works with Linux distributions, as some packages are not available for other platforms. Please refer to the documentation of the package manager to create a new virtual environment.
The folder “Modelling” contains all scripts related to growth models on co-cultures. A detailed description of the modelling can be found in the section Model on our wiki.
The folder “Disease_prediction” includes three jupyter notebooks for preprocessing of microbial data, a logistic regression model and a graph neural network. A detailed description of the code can be found in the section Software on our wiki.