This website gathers author-created supplementary material for the

Handbook of Infectious Disease Data Analysis (Chapman & Hall/CRC, 2019).

Part III: Analysis of Outbreak Data

Iterated Filtering Methods for Markov Process Epidemic Models

by Theresa Stocks

• Preprint: https://arxiv.org/abs/1712.03058

• Replication code: https://github.com/theresasophia/chapter_IFmethods

Part IV: Analysis of Seroprevalence Data

Persistence of Passive Immunity, Natural Immunity (and Vaccination)

by Amy K Winter and C. Jessica E. Metcalf

• Replication code: https://github.com/HIDDA/persistence

Inferring the Time of Infection from Serological Data

by Maciej F. Boni, Kare Mølbak, and Karen A. Krogfelt

• Replication code: https://github.com/maciekboni/2019-HIDDA-Time-Of-Infection

Mixture Modeling

by Emanuele Del Fava and Ziv Shkedy

• Replication code: https://github.com/emanudelfava/sero-bayes-mixture

Part V: Analysis of Surveillance Data

Prospective Detection of Outbreaks

by Benjamin Allévius and Michael Höhle

• Preprint: https://arxiv.org/abs/1711.08960

• Replication code: https://github.com/BenjaK/ProspectiveDetectionChapter

Spatio-Temporal Analysis of Surveillance Data

by Jon Wakefield, Tracy Qi Dong, and Vladimir N. Minin

• Preprint: https://arxiv.org/abs/1711.00555

• Replication code & supplements: https://arxiv.org/src/1711.00555v1/anc

Forecasting Based on Surveillance Data

by Leonhard Held and Sebastian Meyer

• Preprint: https://arxiv.org/abs/1809.03735

• R package HIDDA.forecasting: https://HIDDA.github.io/forecasting