Bac-CoMed combines Genome-Scale Metabolic Models, Flux Balance Analysis (FBA) and Genetic Algorithms (GA) to design novel growth media for bacterial communities, in which the bacteria show a certain growth behavior.

These instructions will get you a copy of the project up and running on your local machine for development and testing purposes. See deployment for notes on how to deploy the project on a live system.

The following python packages are required to run Bac-CoMed:

cobrapy

A solver is needed to run the Flux Balance Analysis. At this time you have the following options:

• ILOG/CPLEX (available with Academic and Commercial licenses).
• gurobi
• glpk

• Download and install the dependencies listed above
• Download Bac-CoMed from github

TODO

• Run Bac-CoMed using the console

python your/install/directory/BacCoMed.py

Running the BacCoMed.py script without arguments will open the Bac-CoMed GUI.