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bioRxiv · 10.1101/318485

The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities

Baldini, F.·Heinken, A.·Heirendt, L.·Magnusdottir, S.·Fleming, R. M. T.·Thiele, I.
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Abstract

MotivationThe application of constraint-based modeling to functionally analyze metagenomic data has been limited so far, partially due to the absence of suitable toolboxes.\n\nResultsTo address this shortage, we created a comprehensive toolbox to model i) microbe-microbe and host-microbe metabolic interactions, and ii) microbial communities using microbial genome-scale metabolic reconstructions and metagenomic data. The Microbiome Modeling Toolbox extends the functionality of the COBRA Toolbox.\n\nAvailabilityThe Microbiome Modeling Toolbox and the tutorials at https://git.io/microbiomeModelingToolbox.

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Baldini, F., Heinken, A., Heirendt, L., Magnusdottir, S., Fleming, R. M. T., Thiele, I.. 2018-05-10. The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities. https://doi.org/10.1101/318485

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