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@SABS-R3-Epidemiology SABS-R3-Epidemiology

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    24 repositories

    • spatialprevalence_dp_share

      Public
      0•0•0•0•Updated Jul 2, 2026Jul 2, 2026

    • branchpro

      Public
      Using branching processes to estimate the time-dependent reproduction number of a disease with imported cases
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•5•0•0•Updated Jun 17, 2026Jun 17, 2026

    • extracellular-pathogen-blocking

      Public
      Jupyter Notebook
      •0•0•0•0•Updated May 11, 2026May 11, 2026

    • seirmo

      Public
      This is a project to model the outbreak of an infectious disease with the SEIR model.
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•3•5•1•Updated Mar 6, 2026Mar 6, 2026

    • rEpiabm

      Public
      R-wrapper for Epiabm
      R
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•2•Updated Nov 24, 2025Nov 24, 2025

    • EpiGeoPop

      Public
      Snakemake workflow to generate country-specific population density data, for use in epidemiological modeling
      agent-based-modelingepidemiologypopulation-density-maps
      agent-based-modelingepidemiologypopulation-density-maps
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•1•0•Updated Sep 19, 2025Sep 19, 2025

    • epiabm

      Public
      Epidemiological agent-based modelling packages in both python and C++. Published at: https://doi.org/10.5334/jors.449.
      agent-based-modelingepidemiology
      agent-based-modelingepidemiology
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •5•21•8•0•Updated Sep 12, 2025Sep 12, 2025

    • .github

      Public
      0•0•0•0•Updated Apr 24, 2025Apr 24, 2025

    • notebooks

      Public
      Python
      •0•0•0•0•Updated Feb 5, 2025Feb 5, 2025

    • EpiPI

      Public
      A package to predict the incidences on each day based on prevalences
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Nov 25, 2024Nov 25, 2024

    • EpiOS

      Public
      Software for optimising sampling strategies using Epiabm output
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•7•1•Updated Oct 2, 2024Oct 2, 2024

    • LAMP-testing

      Public
      0•0•0•0•Updated Apr 26, 2024Apr 26, 2024

    • wolsim

      Public
      Agent based modelling of Wolbachia pathogen blocking
      Python
      •0•0•0•0•Updated Apr 24, 2024Apr 24, 2024

    • abm-project-2023

      Public
      Mini project for an ABM
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 6, 2023Nov 6, 2023

    • serocatalytic

      Public
      0•0•0•0•Updated Nov 4, 2023Nov 4, 2023

    • epicluster

      Public
      Bayesian nonparametric methods for learning rapid changes in disease transmission
      Jupyter Notebook
      •0•1•0•0•Updated Nov 4, 2023Nov 4, 2023

    • transmission-heterogeneity-results

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•1•Updated Nov 3, 2023Nov 3, 2023

    • spatial-clustering

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jul 13, 2023Jul 13, 2023

    • epicluster-results

      Public
      Results for learning changes in disease transmission using Bayesian nonparametrics
      Jupyter Notebook
      •0•2•0•0•Updated Jul 11, 2023Jul 11, 2023

    • host-viral-kinetics

      Public
      Python
      •0•0•1•1•Updated May 31, 2023May 31, 2023

    • epistrains

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•2•1•Updated Mar 28, 2023Mar 28, 2023

    • covid-policy-2022

      Public
      BSD 3-Clause "New" or "Revised" License
      •0•0•1•0•Updated Oct 24, 2022Oct 24, 2022

    • covid-data-policy

      Public
      COVID-19 Data and Policy Exercise
      Python
      •0•0•0•0•Updated Oct 28, 2021Oct 28, 2021

    • pkmodelling-g3

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 23, 2020Oct 23, 2020
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