Software
R packages and other software developed by the group
Reusable tools and packages developed by the group. See also our ongoing projects and publications.
EpiNow2
Estimate Realtime Case Counts and Time-varying Epidemiological Parameters
epinowcast
A modular Bayesian framework for real-time infectious disease surveillance. Provides tools for nowcasting, reproduction number estimation, delay estimation, and forecasting from data subject to reporting delays, right-truncation, missing data, and incomplete ascertainment
scoringutils
Utilities for Scoring and Assessing Predictions
rbi
Bayesian inference with state-space models using LibBi.
baselinenowcast
In-development R package to nowcast right-truncated epidemiological data
lopensemble
Model stacking for predictive ensembles
epimixr
Epidemiological analysis using social mixing matrices
rbi.helpers
Helper functions for inference with LibBi. Building on the rbi library.
qrensemble
Function and example for quantile regression average
socialmixr
Derive social mixing matrices from survey data.