COMETS is a software platform for performing computer simulations of metabolism in spatially structured microbial communities. It is based on stoichiometric modeling of the genome-scale metabolic network of individual microbial species (using dynamic flux balance analysis), and on a discrete approximation of diffusion. For more information, see Harcombe et al., Metabolic Resource Allocation in Individual Microbes Determines Ecosystem Interactions and Spatial Dynamics, Cell Reports, 2014.
Download:
COMETS can be downloaded here.
Install and Run:
The instructions for installing and running COMETS are here.
User Manual:
How to start with COMETS and description of the layout and model files format is here.
Publications, Layouts and Models:
Examples of published layouts and models are here.
Software Development:
COMETS is open-source software. If you are interested in contributing to the development of COMETS and would like to obtain a copy of the code, please contact us:
comets@bu.edu