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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 Public

    Computation of Microbial Ecosystems in Time and Space

    Java 21 11

  2. cometspy Public

    Python interface for running COMETS simulations and analyzing the results

    Python 11 9

  3. comets-toolbox Public

    MATLAB scripts and utilities for the COMETS software for spatial DFBA

    MATLAB 2 3

  4. MiCoNE Public

    The Microbial Co-occurrence Network Explorer

    Python 19 4

Repositories

Showing 10 of 42 repositories
  • cometspy Public

    Python interface for running COMETS simulations and analyzing the results

    Python 11 GPL-3.0 9 18 0 Updated Feb 4, 2025
  • comets Public

    Computation of Microbial Ecosystems in Time and Space

    Java 21 MIT 11 23 0 Updated Feb 4, 2025
  • COMETS_Protocols Public

    COMETS simulations examples and protocols

    Mathematica 1 CC0-1.0 3 1 0 Updated Feb 4, 2025
  • SNP23 Public

    Variant Calling on Marine Strains (2023)

    Shell 0 0 7 0 Updated Dec 16, 2024
  • MetabolicComplexityDivergence Public

    Code for "Metabolic complexity drives divergence in microbial communities"

    Jupyter Notebook 0 MIT 0 0 0 Updated Nov 11, 2024
  • learn-fba Public

    Didactic materials for teaching FBA.

    Jupyter Notebook 1 1 0 0 Updated Sep 25, 2024
  • R 0 0 1 0 Updated Sep 6, 2024
  • microscopy-vault Public

    coordination of microscope experiment, initiated for the marine projects summer 2024

    0 CC0-1.0 0 0 0 Updated Jun 28, 2024
  • GEM2CUE Public
    Python 0 MIT 0 5 0 Updated May 10, 2024
  • bm3-book Public
    Jupyter Notebook 1 0 2 0 Updated Apr 30, 2024