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@segrelab

Segrè Lab

Daniel Segrè Lab at Boston University

Through mathematical modeling and experiments, we study the dynamics and evolution of metabolic networks in living systems. We are interested both in the fundamental principles of biological organization and in applications to environmental sustainability and human health.

To learn more about the lab, visit our website.

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  1. comets comets Public

    Computation of Microbial Ecosystems in Time and Space

    HTML 31 16

  2. cometspy cometspy Public

    Python interface for running COMETS simulations and analyzing the results

    Python 15 12

  3. comets-toolbox comets-toolbox Public

    MATLAB scripts and utilities for the COMETS software for spatial DFBA

    MATLAB 2 4

  4. MiCoNE MiCoNE Public

    The Microbial Co-occurrence Network Explorer

    Python 21 4

Repositories

Showing 10 of 48 repositories
  • comets Public

    Computation of Microbial Ecosystems in Time and Space

    segrelab/comets's past year of commit activity
    HTML 31 MIT 16 18 0 Updated Nov 10, 2026
  • metaCRM_SynCom Public

    Metabolomics-informed consumer-resource modeling of a 15-member synthetic microbial community.

    segrelab/metaCRM_SynCom's past year of commit activity
    Python 3 MIT 1 0 0 Updated Oct 6, 2026
  • segrelab/Human-GEM-custom's past year of commit activity
    Python 1 0 0 0 Updated Oct 5, 2026
  • segrelab/Combined-Phenotyping-of-Carbon-and-Nitrogen-sources-2026's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jun 5, 2026
  • cometspy Public

    Python interface for running COMETS simulations and analyzing the results

    segrelab/cometspy's past year of commit activity
    Python 15 GPL-3.0 12 20 0 Updated May 19, 2026
  • HOT5-strains-paper-2026 Public

    Public repository for Osborne et al 2026 manuscript with code for wgs of HOT5 strains and code for for data analysis and figure generation

    segrelab/HOT5-strains-paper-2026's past year of commit activity
    R 0 CC0-1.0 0 0 0 Updated Mar 27, 2026
  • segrelab/string-chemistry's past year of commit activity
    Python 2 1 0 1 Updated Jan 21, 2026
  • GEM-hot1a3 Public
    segrelab/GEM-hot1a3's past year of commit activity
    Linear Programming 0 0 0 0 Updated Dec 18, 2025
  • GEM-atcc27126 Public
    segrelab/GEM-atcc27126's past year of commit activity
    Linear Programming 0 0 0 0 Updated Dec 18, 2025
  • comets-virus Public
    segrelab/comets-virus's past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Nov 25, 2025

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