R packages
mitey v0.3.0
A lightweight R package with methods to estimate serial intervals and time-varying reproduction numbers from infectious disease outbreak data.
vacamole
An R package that features a deterministic age-structured compartmental susceptible-exposed-infectious-recovered (SEIR) model and supporting functions.
morevac
An R package that features a multi-annual, individual-based, stochastic, force of infection model that accounts for individual exposure histories and disease/vaccine dynamics influencing susceptibility.
pika
A lightweight R package for estimating the optimal lag and rolling correlation by grouping variable between two time series.
serosolver
An open source R package for inferring epidemiological and immunological dynamics from serological data using a Bayesian framework to reconstruct individual-level infection histories and estimate antibody kinetics.
Web Applications
The Warehouse
A function-first R package directory that helps data scientists find packages by what they do, not just by their names. Features AI-powered semantic search, curated categories, and community reviews.
Collaboration
Interested in contributing to any of these projects? Most repositories welcome contributions via GitHub issues and pull requests. For major collaborations or new project ideas, feel free to reach out via email.