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@segrelab

Segrè Lab

README.md

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

    Java 19 10

  2. cometspy cometspy Public

    Python interface for running COMETS simulations and analyzing the results

    Python 11 9

  3. comets-toolbox comets-toolbox Public

    MATLAB scripts and utilities for the COMETS software for spatial DFBA

    MATLAB 2 3

  4. MiCoNE MiCoNE Public

    The Microbial Co-occurrence Network Explorer

    Python 19 4

Repositories

Showing 10 of 42 repositories
  • SNP23 Public

    Variant Calling on Marine Strains (2023)

    segrelab/SNP23’s past year of commit activity
    Shell 0 0 6 0 Updated Nov 25, 2024
  • MetabolicComplexityDivergence Public

    Code for "Metabolic complexity drives divergence in microbial communities"

    segrelab/MetabolicComplexityDivergence’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Nov 11, 2024
  • comets Public

    Computation of Microbial Ecosystems in Time and Space

    segrelab/comets’s past year of commit activity
    Java 19 MIT 10 22 1 Updated Nov 7, 2024
  • learn-fba Public

    Didactic materials for teaching FBA.

    segrelab/learn-fba’s past year of commit activity
    Jupyter Notebook 1 1 0 0 Updated Sep 25, 2024
  • iamm-collection Public
    segrelab/iamm-collection’s past year of commit activity
    R 0 0 1 0 Updated Sep 6, 2024
  • cometspy Public

    Python interface for running COMETS simulations and analyzing the results

    segrelab/cometspy’s past year of commit activity
    Python 11 GPL-3.0 9 18 0 Updated Aug 14, 2024
  • microscopy-vault Public

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

    segrelab/microscopy-vault’s past year of commit activity
    0 CC0-1.0 0 0 0 Updated Jun 28, 2024
  • GEM2CUE Public
    segrelab/GEM2CUE’s past year of commit activity
    Python 0 MIT 0 5 0 Updated May 10, 2024
  • bm3-book Public
    segrelab/bm3-book’s past year of commit activity
    Jupyter Notebook 1 0 2 0 Updated Apr 30, 2024
  • Dukovski_et_al_2024 Public

    COMETS input file to reproduce the results and figures in Dukovski et al. (2024)

    segrelab/Dukovski_et_al_2024’s past year of commit activity
    MATLAB 0 0 0 0 Updated Apr 1, 2024
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