baroudlab/apc-mutation-t-cells

Analysis of T cells trajectories and killing

This repository contains all data and jupyter notebooks to reproduce analysis and generate all panels from main and supplementary figures from the article "Cancer-on-a-chip model shows that the adenomatous polyposis coli mutation impairs T cell engagement and killing of cancer spheroids" by Bonnet et al.

Installation

We recommand to create a specific python environment to avoid any conflict in package versions.

conda create --name ### python=3.7

You need to install via the repository. In the command prompt enter:

git clone https://github.com/BaroudLab/APC-mutation-T-cells.git

This should download the project. Then install the required packages. In the terminal, navigate to the package directory and type:

cd APC-mutation-T-cells
pip install -r requirements.txt

Now you can run the notebooks using Jupyter Lab

jupyter lab

Otherwise, try it on