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franciscozorrilla/README.md

👋 Hi there

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Biological engineer-turned computational biologist researching microbial community metabolism in the Sunagawa Lab.

  • ☄️ Applying metagenomics, genome-scale metabolic modeling, protein strucutre, and machine learning approaches for microbiome research
  • ⚙️ In descending order of preference, I enjoy coding in bash, R, python, and MATLAB
  • 📦 Writing workflows in Snakemake and deploying them on high performance computing clusters
  • 👽 PhD with Kiran Patil's group @ the MRC Toxicology Unit, University of Cambridge

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  1. metaGEM metaGEM Public

    💎 An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

    Python 261 47

  2. SymbNET SymbNET Public

    Teaching materials for SymbNET course: from MAGs to GEMs

    Jupyter Notebook 14 3

  3. EMBOMicroCom EMBOMicroCom Public

    Metabolic modeling tutorial for EMBO practical course: Metabolite and species dynamics in microbial communities 2022

    R 13 2

  4. SysBioChalmers/hanpo-GEM SysBioChalmers/hanpo-GEM Public

    Draft genome-scale model of Hansenula polymorpha (Ogataea polymorpha; Pichia angusta)

    MATLAB 6 1

  5. Chrats-Melkonian/mi_cheese Chrats-Melkonian/mi_cheese Public

    Repository with code & data for the publication Microbial interactions shape cheese flavour formation

    R 2

  6. systems-biology-fba-practical systems-biology-fba-practical Public

    Forked from arianccbasile/Systems-Biology-practical2022

    University of Cambridge Part III Systems Biology course, practical exercises for learning flux balance analysis

    HTML 8 2