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@reconhub R Epidemics Consortium

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    71 repositories

    • projections2

      Public
      A collection of tools for forecasting incidence using the incidence2 and EpiEstim packages.
      R
      •
      Other
      •0•0•7•0•Updated Mar 27, 2026Mar 27, 2026

    • outbreaker2

      Public
      Disease outbreak reconstruction from epidemiological and genetic data
      R
      •
      Other
      •21•35•16•1•Updated Mar 27, 2026Mar 27, 2026

    • epiflows

      Public
      ☣:airplane: Risk assessment of travel-related disease spread
      rr-packageoutbreak
      rr-packageoutbreak
      R
      •
      Other
      •13•19•3•4•Updated Mar 9, 2026Mar 9, 2026

    • incidence

      Public
      ☣:chart_with_upwards_trend::chart_with_downwards_trend:☣ Compute and visualise incidence
      rr-packageoutbreak
      rr-packageoutbreak
      R
      •
      Other
      •14•57•17•4•Updated Jun 19, 2025Jun 19, 2025

    • epicontacts

      Public
      Handling, Visualisation and Analysis of Epidemiological Contacts
      rr-packageoutbreak
      rr-packageoutbreak
      R
      •19•17•14•2•Updated Apr 17, 2025Apr 17, 2025

    • projections

      Public
      Projections of future incidence
      rr-package
      rr-package
      R
      •
      Other
      •8•14•11•0•Updated Dec 6, 2024Dec 6, 2024

    • recon_site_reboot

      Public
      RECON Site consolidation
      Lua
      •0•0•6•0•Updated Dec 4, 2024Dec 4, 2024

    • reconhub.github.io

      Public
      Official website for RECON - The R Epidemics CONsortium
      R
      •
      MIT License
      •65•31•3•2•Updated Aug 2, 2024Aug 2, 2024

    • epitrix

      Public
      Small Helpers and Tricks for Epidemics Analysis
      repidemiologyr-package
      repidemiologyr-package
      R
      •
      Other
      •5•11•4•1•Updated Sep 20, 2023Sep 20, 2023

    • task-covid19-webpage

      Public
      Vue
      •0•0•1•5•Updated Apr 21, 2023Apr 21, 2023

    • linelist

      Public
      An R package to import, clean, and store case data
      R
      •
      Other
      •5•25•14•3•Updated Dec 9, 2022Dec 9, 2022

    • aweek

      Public
      Convert dates to arbitrary week definitions :calendar:
      rtimeseriesweek
      rtimeseriesweekdatesepidemiologydate-formattingr-package
      R
      •
      Other
      •4•17•4•1•Updated Oct 6, 2022Oct 6, 2022

    • learn

      Public
      RECON learn: a free, open platform for training material on epidemics analysis
      markdownwebsiter
      markdownwebsiterwebsitesreconhtmlwidgetsblogdownlockedataoutbreaks
      HTML
      •
      Other
      •29•36•14•0•Updated Aug 1, 2022Aug 1, 2022

    • rfextras

      Public
      R
      •
      Other
      •2•6•0•0•Updated Aug 12, 2021Aug 12, 2021

    • trendbreaker

      Public
      Analysing epidemic trends using AutoML approaches.
      R
      •
      Other
      •7•19•28•0•Updated Apr 23, 2021Apr 23, 2021

    • logo

      Public
      Logo of the project
      Other
      •0•0•0•1•Updated Mar 10, 2021Mar 10, 2021

    • task-covid19-api

      Public
      R
      •0•0•0•0•Updated Feb 3, 2021Feb 3, 2021

    • simulacr

      Public
      Helper functions for outbreak simulation
      R
      •
      Other
      •2•5•0•0•Updated Dec 4, 2020Dec 4, 2020

    • earlyR

      Public
      Estimation of infectiousness in the early stage of an outbreak, with short-term predictions.
      R
      •
      Other
      •3•9•11•0•Updated Oct 27, 2020Oct 27, 2020

    • deployer

      Public
      Self-contained R environment on a thumb drive
      R
      •3•10•4•0•Updated Oct 20, 2020Oct 20, 2020

    • tasks

      Public
      0•1•24•0•Updated Aug 17, 2020Aug 17, 2020

    • occupancy

      Public
      WIP - Forecast hospital bed occupancy from data on admissions and length of stay
      R
      •
      Other
      •0•4•2•0•Updated Jul 21, 2020Jul 21, 2020

    • nomad

      Public
      :package::point_right::school_satchel: Pack up R to take away
      R
      •
      Other
      •2•8•6•1•Updated Jul 10, 2020Jul 10, 2020

    • matchmaker

      Public
      Dictionary-based cleaning for categorical variables
      R
      •
      GNU General Public License v3.0
      •2•8•2•1•Updated May 18, 2020May 18, 2020

    • covid19hub

      Public
      Community-driven COVID-19 analytics in R
      2•58•8•0•Updated Apr 3, 2020Apr 3, 2020

    • guides

      Public
      Recon's guidelines for writing statistical analyses reports
      HTML
      •
      MIT License
      •2•7•1•1•Updated Feb 28, 2020Feb 28, 2020

    • report_factories_templates

      Public
      Templates of report factories
      R
      •8•8•9•3•Updated Dec 31, 2019Dec 31, 2019

    • ESCAIDE_2019_workshop

      Public
      The website of the R workshops for ESCAIDE 2019
      CSS
      •
      Other
      •2•1•0•0•Updated Nov 15, 2019Nov 15, 2019

    • datacomparator

      Public
      Shiny app for comparing 2 versions of a dataset
      R
      •
      Other
      •2•5•5•1•Updated Oct 26, 2019Oct 26, 2019

    • introduction-to-r-stegen

      Public
      HTML
      •
      Creative Commons Attribution 4.0 International
      •0•1•0•0•Updated Oct 16, 2019Oct 16, 2019
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