BACCHUS

BACteria Colony Hybrid Unified Simulator

(Some people will ask "Unified?", Bacchus will answer: Wine not?)

---

Bacchus is a hybrid agent-based model simulating bacterial colonies in which each bacteria can be provided by an internal set of reactions and bacteria can interact by secreting diffusible molecules.

Files

• bacterium.cpp, bacterium.h the bacterium class contains the properties of each single bacterium in the population
• population.cpp, population.h the population class manages groups of bacterium objects controlling their evolution in time
• algebra2d.cpp, algebra2d.h library to perform vector operations in the plane
• pars.in input parameter file
• main.cpp main file to run the simulation
• popplot.py Python code to create colony images and videos from the output of main.

TODO list:

• Change the ".in" file to a ".xml" or ".json"