My name is Clémence Frioux, welcome!

• 👩‍💻 I am a researcher in computational biology
• 📍 I work at Inria, a French research Institute on computer science and mathematics. I am located in Bordeaux, France
• 🧬 🦠 I am interested in the (functional) characterisation of microbial communities. I mostly work on metabolic modelling 🦠, but I also work on microbiome composition and metagenomics 🧬
• 😄 Pronouns: She/Her
• ➡️ More info on my website: [https://cfrioux.github.io]

I was not a developer in all of those projects but participated to them.

Evaluation of assembly and binning quality for Hi-Fi metagenomics.

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• Paper

A package for non-negative factorisation and its bi-cross validation.

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Pipeline dedicated to the (optional) automatic reconstruction of genome-scale metabolic network and characterising the metabolic potential and metabolic complementarity in microbial communities.

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• Paper

Shiny-based interface to integrate results of Metage2Metabo together with sample and taxonomic metadata, in order to compare metabolic potential across large cohorts of samples.

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Several tools relying on network expansion to explore metabolic networks.

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• Paper

Selection of minimal communities ensuring the reachability of target metabolites, using a collection of metabolic networks

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• Paper

Inference of seeds (environmental composition) from metabolic networks, using network expansion and flux balance analysis. Can be used for individual populations and microbial communities.

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• Paper for individual populations
• Paper for microbial communities

Gap-filling of metabolic networks.

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• Paper

Automatic reconstruction and comparison of metabolic networks.

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• Paper

Python wrapper for Pathway Tools (reconstruction of metabolic networks).

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• Paper