optimModels

The Python framework under development will allow the strain design of single and microbial community cultures. The main focus is to provide support for different modeling approaches.

• Simulation: allows to simulate different kinetic metabolic models considering different phenotypes. For the kinetic models simulation, we use the Odespy framework, which offers a unified interface to a large collection of software for solving systems of ordinary differential equations (ODEs).

• Optimization: perform the optimization using evolutionary computation. The inspyred framework is used for creating biologically-inspired computational intelligence algorithms in Python, including evolutionary computation.

Documentation

For documentation and API please check: http://optimModels.readthedocs.io/

Instalation

pip install optimModels

Credits and License

Developed at:

• Centre of Biological Engineering, University of Minho (2017)

Released under an Apache License.