.. meta::
   :description: MIMEco is a Python package that explores communities metabolic interactions using multi-objective linear programming on GEnome-scale Metabolic models (GEMs). This tool automates the inference of interaction type, interaction score and exchanged metabolites between two models in a given condition.


Welcome to MIMEco
==================
**MIMEco** is a Python package that explores communities metabolic interactions using multi-objective linear programming on GEnome-scale Metabolic models (GEMs).
This tool automates the inference of interaction type, interaction score and exchanged metabolites between two models in a given condition.

The concept of the methodology is described in `Lambert, A., Budinich, M., Mahé, M., Chaffron, S., & Eveillard, D. (2024). Community metabolic modeling of host-microbiota interactions through multi-objective optimization. Iscience, 27(6). <http://doi.org/10.1016/j.isci.2024.110092>`_ 

You can access the source code on `github <https://github.com/Anna-cell/mimeco>`_ 

Check out the :doc:`global_usage` and :doc:`enterocyte_specific_analysis` sections for further information

.. note::

   This project is under active development.

Contents
---------

.. toctree::
   :maxdepth: 2
   :caption: User Guide

   Home <self>
   installation
   Global_usage/Global_usage
   enterocyte_specific_analysis

.. toctree::
   :maxdepth: 2
   :caption: API modules

   analysis
   utils