SISMID 2018 Modules

10th Annual Summer Institute in Statistics and Modeling in Infectious Diseases (SISMID)

Module 10: MCMC II for Infectious Diseases

Session 4: Wed Jul 18 to Fri Jul 20

Module dates/times: Wednesday, July 18, 1:30-5 p.m.; Thursday, July 19, 8:30 a.m.-5 p.m., and Friday, July 20, 8:30 a.m.-5 p.m.

This course is full. If you wish to be placed on the waiting list, email

Prerequisites: The course assumes all the material in Module 4: MCMC I for Infectious Diseases or the equivalent knowledge of MCMC. Students are expected to have a working knowledge of the R computing environment. Programming will be in R. Students new to R should complete an extensive tutorial before the module. This module assumes knowledge of the material in Module 1: Probability and Statistical Inference, though not necessarily from taking that module.

Recommended, but not required: Knowledge of the material from Module 2: Mathematical Models of Infectious Diseases or Module 5: Stochastic Epidemic Models with Inference, or the equivalentwould be helpful, but not required.

This module continues on from Module 4 by looking in detail at practical implementation issues for MCMC methods when applied to data from infectious disease outbreaks. The main focus will be towards inference for the SIR (susceptible-infected-removed) model. Topics include parameterization, methods for improving convergence, assessing MCMC output, and data augmentation methods. Programming will be carried out in R.

Access 2017 Course Materials (2018 materials will be uploaded to this page prior to the start of the module)