Epiforecasts

All

107 repositories

qrensemble
Public
Function and example for quantile regression average
R
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MIT License
•0•3•0•1•Updated Aug 18, 2025Aug 18, 2025
scoringutils
Public
Utilities for Scoring and Assessing Predictions
forecasting r-package forecast-evaluation
R
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Other
•24•54•104•2•Updated Aug 18, 2025Aug 18, 2025
dist.spec
Public
Define probability distributions with certain or uncertain parameters
R
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MIT License
•0•1•2•1•Updated Aug 18, 2025Aug 18, 2025
contactsurveys
Public
Download and access social contact data
R
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Other
•0•0•3•1•Updated Aug 18, 2025Aug 18, 2025
evalwwforecasts
Public
Evaluation of forecasts with and without incorporating wastewater
R
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Other
•1•0•11•2•Updated Aug 17, 2025Aug 17, 2025
socialmixr
Public
R package for deriving social mixing matrices from survey data.
r r-package
R
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Other
•13•40•27•1•Updated Aug 15, 2025Aug 15, 2025
EpiNow2
Public
Estimate Realtime Case Counts and Time-varying Epidemiological Parameters
open-source rstats stan gaussian-processes backcalculation reproduction-number covid-19
R
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Other
•38•131•56•7•Updated Aug 12, 2025Aug 12, 2025
epiforecasts.github.io
Public
Quarto website for EpiForecasts
HTML
•6•5•11•1•Updated Aug 12, 2025Aug 12, 2025
lopensemble
Public
Model stacking for predictive ensembles
forecasting ensembles stacking crps
HTML
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MIT License
•3•6•3•1•Updated Aug 11, 2025Aug 11, 2025
cityforecasts
Public
R scripts to generate city-level forecasts
R
•0•1•13•3•Updated Aug 5, 2025Aug 5, 2025
daily-vs-weekly-forecast-eval
Public
Evaluation of forecasts generated with daily and weekly inputs
R
•0•1•11•0•Updated Aug 1, 2025Aug 1, 2025
delayscompare
Public
R
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GNU General Public License v3.0
•0•1•0•0•Updated Jul 30, 2025Jul 30, 2025
mme-review
Public
Systematic review of multi-model ensemble evaluations in infectious disease
TeX
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MIT License
•0•4•11•0•Updated Jul 30, 2025Jul 30, 2025
slack_bot
Public
The source code for our friendly EpiForecasts bot
R
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Other
•0•2•0•0•Updated Jul 29, 2025Jul 29, 2025
ringbp
Public
Simulate infectious disease transmission with contact tracing
transmission controlling-outbreaks
R
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Other
•10•16•22•3•Updated Jul 18, 2025Jul 18, 2025
eval-by-method
Public
Thematic analysis of model performance in the European COVID-19 Forecast Hub
R
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Other
•0•5•1•0•Updated Jul 2, 2025Jul 2, 2025
EpiSoon
Public
Forecasting the effective reproduction number over short timescales
forecasts case-forecasts
HTML
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Other
•3•7•11•0•Updated Jun 19, 2025Jun 19, 2025
epiforecasts.r-universe.dev
Public
epiforecasts R universe
infrastructure
0•2•0•0•Updated Jun 19, 2025Jun 19, 2025
ssi-2025-grant
Public
SSI 2025 software maintenance grant application
0•0•0•0•Updated Jun 2, 2025Jun 2, 2025
stanedit
Public
Edit stan models from R
probabilistic-programming stan
R
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Other
•0•2•1•1•Updated Feb 24, 2025Feb 24, 2025
bpmodels
Public
[RETIRED. Use the epichains package instead]. Methods for simulating and analysing the sizes and lengths of chains from branching process models
r epidemiology r-package branching-process epidemic-simulations epidemic-modelling transmission-chain-reconstruction transmission-chain outbreak-simulator epidemic-dynamics
R
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Other
•7•7•6•0•Updated Feb 5, 2025Feb 5, 2025
europe-covid-forecast
Public
R
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MIT License
•1•4•5•0•Updated Jan 12, 2025Jan 12, 2025
modelling-utility-review
Public
MIT License
•0•1•0•0•Updated Sep 27, 2024Sep 27, 2024
nowcasting.example
Public
Estimate reporting delays and use them for nowcasting
R
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MIT License
•1•3•4•0•Updated Sep 7, 2024Sep 7, 2024
epiforecasts_gantt_chart
Public
Some basic R code for making the lab personnel gantt chart
R
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MIT License
•6•1•0•0•Updated Jul 16, 2024Jul 16, 2024
uk-crowd-forecasting-challenge
Public
TeX
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MIT License
•0•2•0•0•Updated May 15, 2024May 15, 2024
covid.german.forecasts
Public
Comparing crowd sourced and model derived forecasts of Covid-19 for Germany and Poland
forecast covid-19 reproduction-number epinow2 epiexpert germany poland
TeX
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MIT License
•1•4•3•0•Updated May 15, 2024May 15, 2024
schedule
Public
EpiForecasts server job scheduling (CRON, docker, and bash)
Shell
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MIT License
•2•1•0•0•Updated Apr 17, 2024Apr 17, 2024
multi-model-information
Public
Characterising information loss due to aggregating epidemic model outputs
R
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MIT License
•0•1•0•0•Updated Mar 28, 2024Mar 28, 2024
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
•0•0•0•0•Updated Mar 14, 2024Mar 14, 2024