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  1. gerberlab/MCSPACE gerberlab/MCSPACE Public

    MCSPACE: A generative AI-based model for identifying, from sequencing data, spatially co-localized assemblages of microbes, and detecting changes in the proportions of these assemblages over time a…

    Jupyter Notebook

  2. MicrobeSimulator MicrobeSimulator Public

    General hybrid agent-based/continuous-field simulator for microbes interacting via secreted compounds

    C++

  3. FluidSpecialization FluidSpecialization Public

    Code to accompany paper "Evolution of specialized microbial cooperation in dynamic fluids"

    MATLAB 1