| EpiNow2 | Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters Sam Abbott , Joel Hellewell , Katharine Sherratt , Katelyn Gostic , Joe Hickson , Hamada S. Badr , Michael DeWitt , Robin Thompson , Sophie Meakin , James Munday , Nikos Bosse , Paul Mee , Peter Ellis , Pietro Monticone , Lloyd Chapman , James M. Azam , Andrew Johnson , EpiForecasts , Sebastian Funk |
| RtD3 | Rt Visualization in D3 Hamish Gibbs , Sam Abbott , Sebastian Funk |
| cfr | Estimate Disease Severity and Case Ascertainment Pratik R. Gupte , Adam Kucharski , Tim Russell , Joshua W. Lambert , Hugo Gruson , Tim Taylor , James M. Azam , Abdoelnaser M. Degoot , Sebastian Funk |
| o2geosocial | Reconstruction of Transmission Chains from Surveillance Data Alexis Robert , Sebastian Funk , Adam J Kucharski , Thibaut Jombart |
| pomp | Statistical Inference for Partially Observed Markov Processes Aaron A. King , Edward L. Ionides , Carles Bretó , Stephen P. Ellner , Matthew J. Ferrari , Sebastian Funk , Steven G. Johnson , Bruce E. Kendall , Michael Lavine , Dao Nguyen , Eamon B. O'Dea , Daniel C. Reuman , Helen Wearing , Simon N. Wood |
| rbi | Interface to 'LibBi' Pierre E. Jacob , Anthony Lee , Lawrence M. Murray , Sebastian Funk , Sam Abbott |
| rbi.helpers | 'rbi' Helper Functions Sebastian Funk |
| scoringutils | Utilities for Scoring and Assessing Predictions Nikos Bosse , Sam Abbott , Hugo Gruson , Johannes Bracher , Sebastian Funk |
| socialmixr | Social Mixing Matrices for Infectious Disease Modelling Sebastian Funk , Lander Willem , Hugo Gruson , Maria Bekker-Nielsen Dunbar , Carl A. B. Pearson , Sam Clifford , Christopher Jarvis , Alexis Robert , Niel Hens , Pietro Coletti , col , dtm |