These are notes from a short course given by Ed Ionides and Aaron King at the Summer Institute in Statistics and Modeling in Infectious Diseases (SISMID). From the main page, links lead to pages on a number of specific topics, culminating in four case studies that exemplify the methods and raise key issues. For each such page, there is a corresponding R script, which contains the codes needed to recapitulate the calculations. This script is a starting point for students to follow, explore, and modify the analysis according to their own curiosity and interest.
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