Repositories list

• epiforecasts.github.io

  Public
  Quarto website for EpiForecasts

  HTML

  •6•5•5•1•Updated Mar 5, 2026Mar 5, 2026

• EpiNow2

  Public
  Estimate Realtime Case Counts and Time-varying Epidemiological Parameters

  open-sourcerstatsstan+ 4

  open-sourcerstatsstangaussian-processesbackcalculationcovid-19reproduction-number

  R

  •

  Other

  •38•133•39•6•Updated Mar 5, 2026Mar 5, 2026

• llm-epi-composition

  Public

  epiforecasts/llm-epi-composition’s past year of commit activity
  Evaluating LLM ability to compose epidemic models with and without validated components

  R

  •0•3•0•0•Updated Mar 5, 2026Mar 5, 2026

• responsible-modelling

  Public
  CSS

  •

  MIT License

  •0•1•2•0•Updated Mar 5, 2026Mar 5, 2026

• scoringutils

  Public
  Utilities for Scoring and Assessing Predictions

  forecastingr-packageforecast-evaluation

  forecastingr-packageforecast-evaluation

  R

  •

  Other

  •25•61•114•31•Updated Mar 5, 2026Mar 5, 2026

• cityforecasts

  Public
  R scripts to generate city-level forecasts

  R

  •0•1•16•0•Updated Mar 4, 2026Mar 4, 2026

• delayscompare

  Public
  Assessing the impact of misspecifying epidemiological distributions on predictive performance.

  R

  •

  GNU General Public License v3.0

  •1•2•0•1•Updated Mar 4, 2026Mar 4, 2026

• evalbehtransmission

  Public
  Evaluation of nowcasting and forecasting using behavioural data including CoMix and Google Mobility

  R

  •0•0•4•2•Updated Mar 4, 2026Mar 4, 2026

• outbreak-theme

  Public

  epiforecasts/outbreak-theme’s past year of commit activity
  Julia

  •1•1•2•0•Updated Mar 4, 2026Mar 4, 2026

• lopensemble

  Public
  Model stacking for predictive ensembles

  forecastingensemblesstacking+ 1

  forecastingensemblesstackingcrps

  HTML

  •

  MIT License

  •3•6•3•1•Updated Mar 2, 2026Mar 2, 2026

• socialmixr

  Public
  Derive social mixing matrices from survey data.

  rr-package

  rr-package

  R

  •

  Other

  •13•43•9•0•Updated Mar 2, 2026Mar 2, 2026

• ringbp

  Public
  Simulate infectious disease transmission with contact tracing

  transmissioncontrolling-outbreaks

  transmissioncontrolling-outbreaks

  R

  •

  Other

  •12•17•22•1•Updated Mar 2, 2026Mar 2, 2026

• qrensemble

  Public
  Function and example for quantile regression average

  R

  •

  MIT License

  •0•3•0•0•Updated Mar 2, 2026Mar 2, 2026

• contactsurveys

  Public
  Download and access social contact data

  R

  •

  Other

  •0•2•0•0•Updated Mar 2, 2026Mar 2, 2026

• dist.spec

  Public
  Define probability distributions with certain or uncertain parameters

  R

  •

  Other

  •0•1•2•2•Updated Mar 2, 2026Mar 2, 2026

• evalvariantnowcasthub

  Public
  A code repository to characterise and evaluate data and nowcasts on SARS-CoV-2 variant dynamics in the U.S. from the U.S. variant nowcast hub

  R

  •

  MIT License

  •2•2•5•1•Updated Feb 25, 2026Feb 25, 2026

• eval-by-method

  Public
  Thematic analysis of model performance in the European COVID-19 Forecast Hub

  R

  •

  Other

  •0•6•26•2•Updated Feb 24, 2026Feb 24, 2026

• daily-vs-weekly-forecast-eval

  Public
  Evaluation of forecasts generated with daily and weekly inputs

  R

  •0•1•8•1•Updated Feb 23, 2026Feb 23, 2026

• forecastbaselines

  Public
  forecastbaselines: R interface to ForecastBaselines.jl

  R

  •

  Other

  •0•0•1•1•Updated Feb 13, 2026Feb 13, 2026

• quantgen

  Public
  Tools for generalized quantile modeling

  R

  •9•0•0•0•Updated Feb 13, 2026Feb 13, 2026

• epiforecasts.r-universe.dev

  Public
  epiforecasts R universe

  infrastructure

  infrastructure

  0•2•0•0•Updated Feb 10, 2026Feb 10, 2026

• RtD3

  Public archive
  Rt visualisation in D3

  JavaScript

  •

  Other

  •2•6•0•0•Updated Feb 3, 2026Feb 3, 2026

• size-adjusted-model-importance

  Public
  MIT License

  •0•0•0•0•Updated Jan 29, 2026Jan 29, 2026

• evalwwforecasts

  Public
  Evaluation of forecasts with and without incorporating wastewater

  R

  •

  Other

  •1•4•4•3•Updated Jan 14, 2026Jan 14, 2026

• actions

  Public
  Reusable GitHub Actions for epiforecasts projects

  0•0•0•0•Updated Dec 7, 2025Dec 7, 2025

• covid

  Public
  Temporal variation in transmission during the COVID-19 outbreak

  covid

  covid

  TeX

  •

  MIT License

  •30•109•8•0•Updated Nov 26, 2025Nov 26, 2025

• covid-rt-estimates

  Public
  National and subnational estimates of the time-varying reproduction number for Covid-19

  open-sourcecountrycovid-19+ 3

  open-sourcecountrycovid-19reproduction-numberepinow2subnational-estimates

  R

  •

  MIT License

  •17•34•13•0•Updated Nov 26, 2025Nov 26, 2025

• slack_bot

  Public
  The source code for our friendly EpiForecasts bot

  R

  •

  Other

  •0•2•0•0•Updated Nov 14, 2025Nov 14, 2025

• Ebola-Expert-Interviews

  Public
  Analysis of the results from interviews with experts regarding the spatial spread of Ebola in North-Kivu (2019/20)

  R

  •

  MIT License

  •0•0•0•3•Updated Oct 8, 2025Oct 8, 2025

• Ebola-Expert-Elicitation

  Public
  Evaluation of spatial forecasts made by humans and models at the end of the 2018-20 Ebola epidemic in North-Kivu, DRC

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Oct 8, 2025Oct 8, 2025