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  1. Saltation Saltation Public

    Epidemiological simulations of saltational pathogen evolution + Hamming dynamics of SARS-CoV-2

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  2. OrganogenesisPCP OrganogenesisPCP Public

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  3. OverdispEvolve OverdispEvolve Public

    Code for evolutionary model of overdispersion

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  4. CenturyFluEvol_Hamming CenturyFluEvol_Hamming Public

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  5. ViralPercolation ViralPercolation Public

    Cellular automaton simulations of viral spread in tissue, including IFN dynamics.

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  6. PopLevelPhyloCurve PopLevelPhyloCurve Public

    Code for "Eco-evolutionary dynamics of pathogen immune-escape: deriving a population-level phylodynamic curve"

    Jupyter Notebook