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    115 repositories

    • Rt-without-renewal

      Public
      Julia
      •
      Apache License 2.0
      •3•0•0•0•Updated Feb 19, 2024Feb 19, 2024

    • FEED_farmer_disease_management_heterogeneity

      Public
      Julia
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Sep 10, 2023Sep 10, 2023

    • concRt.jl

      Public
      Julia
      •
      MIT License
      •2•0•0•0•Updated Aug 31, 2023Aug 31, 2023

    • NZWastewaterModelling

      Public
      Julia
      •5•0•0•0•Updated Jul 26, 2023Jul 26, 2023

    • tutorials_julia

      Public
      This is the official repository for the "doggo dot jl" YouTube channel (fka "julia for talented amateurs").
      HTML
      •
      MIT License
      •57•0•0•0•Updated Jul 17, 2023Jul 17, 2023

    • monkeypox_UK

      Public
      Some code for monkeypox
      Julia
      •
      MIT License
      •2•1•0•0•Updated Feb 25, 2023Feb 25, 2023

    • epi_impacts_NHS_COVID-19_app_first_year

      Public
      Code to support the paper "Epidemiological impacts of the NHS COVID-19 app in England and Wales throughout its first year"
      R
      •1•0•0•0•Updated Feb 22, 2023Feb 22, 2023

    • CoronaNetR

      Public
      R package that offers access to the CoronaNet policy database of government responses to COVID-19.
      R
      •
      Other
      •1•0•0•0•Updated Feb 2, 2023Feb 2, 2023

    • EasyModelAnalysis.jl

      Public
      High level functions for analyzing the output of simulations
      Julia
      •
      MIT License
      •14•0•0•0•Updated Jan 31, 2023Jan 31, 2023

    • COVID-19_Piedmont

      Public
      COVID-19 Surveillance Data Modelling and Management Pipeline in Piedmont.
      Julia
      •
      MIT License
      •1•0•0•0•Updated Jan 18, 2023Jan 18, 2023

    • estimate-emergence-from-data

      Public
      Code for reproducing the results from the preprint "Estimating the date of emergence of an epidemic outbreak from detection data: Applications to COVID-19".
      R
      •
      MIT License
      •2•0•0•0•Updated Jan 13, 2023Jan 13, 2023

    • COVIDPoliticalEvents.jl

      Public
      Paper replication package.
      Julia
      •
      MIT License
      •1•0•0•0•Updated Dec 31, 2022Dec 31, 2022

    • EpiSimulator

      Public
      EpiSimulator: A Data-Driven Stochastic Hybrid Model for COVID-19 in Italy.
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Dec 23, 2022Dec 23, 2022

    • Flusight-forecast-data

      Public
      R
      •
      Other
      •66•0•0•0•Updated Nov 11, 2022Nov 11, 2022

    • .github

      Public
      Special repository containing the profile directory of JuliaEpi.
      data-sciencestatisticsforecastingepidemiologybayesian-inferenceuncertainty-quantificationinfectious-diseasesnowcastingscenario-analysisinfectious-disease-models
      MIT License
      •0•3•0•0•Updated Nov 8, 2022Nov 8, 2022

    • nowcasting_covid19

      Public
      Bayesian Nowcasting with application to COVID-19 fatalities in Sweden
      R
      •1•0•0•0•Updated Nov 6, 2022Nov 6, 2022

    • EpiSciML-Tutorials

      Public
      Julia for Epidemiology - With a Scientific Machine Learning Perspective.
      Julia
      •3•2•0•0•Updated Oct 29, 2022Oct 29, 2022

    • COVID19_Spatial_Model

      Public
      This repository contains the implementation of the model described in the paper "Predicting the impact of COVID-19 vaccination campaigns - a flexible age-dependent spatially-stratified predictive model, accounting for multiple viral variants and vaccines".
      Julia
      •
      MIT License
      •2•0•0•0•Updated Oct 20, 2022Oct 20, 2022

    • BayesFitR_Halle

      Public
      Teaching material for Halle Summer School 2022: Bayesian inference of infectious disease ODE models in R
      HTML
      •
      MIT License
      •1•1•0•0•Updated Sep 12, 2022Sep 12, 2022

    • covid-19-in-households-public

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •4•0•0•0•Updated Sep 2, 2022Sep 2, 2022

    • linelist

      Public
      R package for handing linelist data
      R
      •
      Other
      •4•0•0•0•Updated Aug 31, 2022Aug 31, 2022

    • MathEpiDeepLearning

      Public
      Awesome-spatial-temporal-data-mining-packages. Julia and Python resources on spatial and temporal data mining. Mathematical epidemiology as an application. Most about package information. Data Sources Links and Epidemic Repos are also included. Keep updating.
      statisticsdeep-learningjuliadata-analysisbayesian-inferencemathematical-biologytime-series-analysisbayesian-deep-learningdata-driven-modelscientific-machine-learning
      JavaScript
      •
      MIT License
      •6•29•0•0•Updated Aug 13, 2022Aug 13, 2022

    • ICD_GEMs.jl

      Public
      ICD_GEMs.jl is a Julia package that allows to translate ICD-9 codes in ICD-10 and viceversa via the General Equivalence Mappings (GEMs) of the International Classification of Diseases (ICD).
      Julia
      •
      MIT License
      •3•1•0•0•Updated Aug 13, 2022Aug 13, 2022

    • agent-based-epidemic-sim

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •17•0•0•0•Updated Aug 8, 2022Aug 8, 2022

    • ColPrac

      Public
      Contributor's Guide on Collaborative Practices for Community Packages
      17•0•0•0•Updated Aug 5, 2022Aug 5, 2022

    • Discussions

      Public
      Repository hosting organisation-level discussions for JuliaEpi to broadcast news, create conversation in the community, answer questions, and share ideas.
      communityjulia-languageinteroperabilityepidemiologymodellinggithub-discussions
      MIT License
      •0•1•0•0•Updated Aug 4, 2022Aug 4, 2022

    • COVID19-Italy-Integrated-Surveillance-Data

      Public
      COVID-19 integrated surveillance data provided by the Italian Institute of Health and deconvolved via UnrollingAverages.jl.
      Julia
      •
      Other
      •4•1•0•0•Updated Aug 4, 2022Aug 4, 2022

    • CANMOD-2022

      Public
      Materials for 2022 CANMOD Workshop on Compositional Methods for Health Modeling
      HTML
      •
      BSD 2-Clause "Simplified" License
      •5•0•0•0•Updated Aug 3, 2022Aug 3, 2022

    • COVIDScenarioPipeline

      Public
      Public shared code for doing scenario forecasting and creating reports for various governmental entities.
      R
      •
      GNU General Public License v3.0
      •47•0•0•0•Updated Aug 3, 2022Aug 3, 2022

    • EpiNow2

      Public
      Estimate Realtime Case Counts and Time-varying Epidemiological Parameters
      HTML
      •
      Other
      •32•0•0•0•Updated Aug 2, 2022Aug 2, 2022