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cfrioux authored Jun 1, 2019
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[![PyPI version](https://img.shields.io/pypi/v/metage2metabo.svg)](https://pypi.org/project/Metage2Metabo/) [![GitHub license](https://img.shields.io/github/license/AuReMe/metage2metabo.svg)](https://github.com/AuReMe/metage2metabo/blob/master/LICENSE) [![Build Status](https://travis-ci.org/AuReMe/metage2metabo.svg?branch=master)](https://travis-ci.org/AuReMe/metage2metabo)
# M2M - metage2metabo
Metage2metabo is a Python3 tool to perform graph-based metabolic analysis starting from annotated genomes (**reference genomes or metagenome-assembled genomes**). It uses *Pathway Tools* in a automatic and parallel way to **reconstruct metabolic networks** for a large number of genomes. The obtained metabolic networks are then **analyzed individually and collectively** in order to get the **added value of metabolic cooperation in microbiota over individual metabolism** and to **identify and screen interesting organisms** among all.
Metage2metabo is a Python3 (Python >= 3.6) tool to perform graph-based metabolic analysis starting from annotated genomes (**reference genomes or metagenome-assembled genomes**). It uses *Pathway Tools* in a automatic and parallel way to **reconstruct metabolic networks** for a large number of genomes. The obtained metabolic networks are then **analyzed individually and collectively** in order to get the **added value of metabolic cooperation in microbiota over individual metabolism** and to **identify and screen interesting organisms** among all.

m2m can be used as a whole workflow ( ``` m2m workflow ``` ) or steps can be performed individually ( ``` m2m recon ``` , ``` m2m iscope ``` , ``` m2m cscope ```, ``` m2m addedvalue ```, ``` m2m mincom ```, ``` m2m seeds ```).

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