Myxobacteria Visualization

This project simulates the behaviors of myxobacteria in a spatially inhemogenous environment using the advection-diffusion equation and the finite element method

Installation

1. Download Docker
2. Download devcontainers in vscode to automaticaly run the dolfinx container
3. Otherwise download the contianer from https://hub.docker.com/r/dolfinx/dolfinx

Project Directory and usage

• The Example Code folder contains example code from the dolfinx tutorials
• The advection diffusion code can be found in the Project Code folder. Simulations have been saved as .gif's.
• AdvectionDiffusion.ipynb contains the simulation for the normal advection diffusion equation.
• AdvectionDIffusion_spatial_variance.ipynb contains the code for the spatially varrying advection diffusion equation.
• Two simulation gifs are included, one with a large velocity coefficient and one with a low velocity coefficient