Repositories list

• variant-nowcast-hub

  Public
  A repository to store COVID-19 variant nowcasts collected as a modeling hub.

  R

  •

  MIT License

  •13•17•7•2•Updated Jul 9, 2025Jul 9, 2025

• reichlab.github.io

  Public
  The website for the Reich Lab @ UMass-Amherst.

  HTML

  •

  Apache License 2.0

  •48•18•10•0•Updated Jul 9, 2025Jul 9, 2025

• FluSight-ILI-template-hub

  Public
  Template repository containing a subset of FluSight ILI forecasts and target data, set up in the hubverse format. Can be cloned for usage as a sandbox hub that accepts retrospective forecasts for any of the provided seasons.

  MIT License

  •0•0•0•0•Updated Jul 8, 2025Jul 8, 2025

• cladetime

  Public
  Python interface for accessing Nextstrain SARS-CoV-2 sequence and clade data

  Python

  •

  MIT License

  •2•7•5•2•Updated Jul 7, 2025Jul 7, 2025

• flusight-dashboard

  Public
  Dashboard for CDC's FluSight prediction exercise.

  Creative Commons Zero v1.0 Universal

  •4•1•0•0•Updated Jul 3, 2025Jul 3, 2025

• flusight-dashboard-staging

  Public
  Staging version of flusight-dashboard -- used to demo updates

  Creative Commons Zero v1.0 Universal

  •4•0•0•0•Updated Jul 3, 2025Jul 3, 2025

• metrocast-dashboard

  Public
  Dashboard website for the epiENGAGE Flu Metrocast Hub.

  Creative Commons Zero v1.0 Universal

  •1•0•0•0•Updated Jul 3, 2025Jul 3, 2025

• covidhub-dashboard

  Public
  Dashboard for the CDC's COVID-19 Forecast Hub

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated Jul 3, 2025Jul 3, 2025

• variant-nowcast-hub-dashboard

  Public
  Dashboard pages and analyses for the US SARS-CoV-2 Variant Nowcast Hub

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •0•0•4•0•Updated Jul 3, 2025Jul 3, 2025

• cdcgov-covid19-forecast-hub

  Public
  A repository run by the US CDC to collect forecasts of weekly incident COVID-19 hospital admissions.

  R

  •

  Apache License 2.0

  •22•0•0•0•Updated Jul 2, 2025Jul 2, 2025

• decisions

  Public
  A public record of decisions made for lab projects

  HTML

  •

  The Unlicense

  •0•1•1•1•Updated Jul 2, 2025Jul 2, 2025

• predictability

  Public
  MIT License

  •0•1•0•1•Updated Jun 20, 2025Jun 20, 2025

• iddata

  Public
  Python module for accessing infectious disease data

  Python

  •

  MIT License

  •0•0•0•0•Updated Jun 18, 2025Jun 18, 2025

• flu-metrocast

  Public
  Short-term forecasts for influenza at the city- and county-level

  R

  •

  MIT License

  •4•3•3•1•Updated May 29, 2025May 29, 2025

• FluSight-forecast-hub

  Public
  FluSight-forecast-hub fork for cloud onboarding

  R

  •

  MIT License

  •80•0•0•0•Updated May 28, 2025May 28, 2025

• reporule

  Public
  CLI for standardizing repo rulesets for a GitHub org or user

  Python

  •

  MIT License

  •0•2•0•1•Updated May 26, 2025May 26, 2025

• predtimechart

  Public
  JavaScript

  •

  MIT License

  •1•1•27•0•Updated May 21, 2025May 21, 2025

• variant-nowcast-model-dev-retro

  Public
  Retrospective model dev for UMass models for variant-nowcast-hub

  R

  •

  MIT License

  •0•2•3•2•Updated May 21, 2025May 21, 2025

• reichlab-utils

  Public archive
  Script to standardize permissions and branch settings for Reichlab repos

  Python

  •

  MIT License

  •1•0•0•0•Updated May 1, 2025May 1, 2025

• get-covid-clade-counts

  Public
  Create virus clade count data and save to an S3 Bucket using functionality from virus-clade-utils

  Python

  •

  MIT License

  •0•0•5•1•Updated Apr 14, 2025Apr 14, 2025

• reichlab-python-template

  Public archive
  A skeleton Python setup for new projects

  Python

  •

  MIT License

  •0•1•0•0•Updated Apr 9, 2025Apr 9, 2025

• forecast-repository

  Public
  Codebase for Zoltar forecast repository

  Python

  •

  GNU General Public License v3.0

  •3•6•41•3•Updated Apr 8, 2025Apr 8, 2025

• excessmort

  Public
  R package for estimating excess deaths from daily count data

  R

  •4•0•0•0•Updated Apr 7, 2025Apr 7, 2025

• deficit-hospitalization

  Public
  MIT License

  •0•0•0•0•Updated Apr 1, 2025Apr 1, 2025

• zoltr

  Public
  R

  •

  GNU General Public License v3.0

  •4•2•10•1•Updated Mar 6, 2025Mar 6, 2025

• jacques

  Public
  Just Another Conditional Quantile Estimator

  Jupyter Notebook

  •

  MIT License

  •1•0•3•1•Updated Feb 27, 2025Feb 27, 2025

• trendsEnsemble

  Public
  R package for running the UMass-trends_ensemble, a model that predicts incident influenza and COVID-19 hospitalizations

  R

  •

  GNU General Public License v3.0

  •0•0•5•0•Updated Feb 20, 2025Feb 20, 2025

• operational-models

  Public
  Repository for automating runs of operational disease forecasting models.

  R

  •

  MIT License

  •0•0•2•0•Updated Feb 20, 2025Feb 20, 2025

• container-utils

  Public
  Utility scripts for containerized apps.

  Shell

  •0•0•0•0•Updated Feb 20, 2025Feb 20, 2025

• sarimaTD

  Public
  sarimaTD R package: SARIMA Models with Transformations and Seasonal Differencing

  R

  •2•4•4•0•Updated Feb 6, 2025Feb 6, 2025