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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 structure approaches, and machine learning to microbiome research
  • ⚙️ I code 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 '24

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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 272 48

  2. soil_auxo soil_auxo Public

    Repository with code & data for the publication: Obligate cross-feeding of metabolites is common in soil microbial communities

    Jupyter Notebook

  3. Chrats-Melkonian/mi_cheese Chrats-Melkonian/mi_cheese Public

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

    R 2

  4. unseenbio_metaGEM unseenbio_metaGEM Public

    metaGEM applied to unseenbio WGS sequencing samples

    8

  5. SymbNET SymbNET Public

    Teaching materials for SymbNET course: from MAGs to GEMs

    Jupyter Notebook 15 3

  6. thesis thesis Public

    LaTeX documents to generate Francisco Zorrilla's PhD thesis at the MRC Toxicology Unit, University of Cambridge

    TeX