Epidemics: Models and Data in R

by Ottar N. Bjornstad (ISBN 978-3-319-97487-3) https://www.springer.com/gp/book/9783319974866

The EPIMDR-package

Description: Functions, data sets and Shiny apps for "Epidemics: Models and Data in R" by Ottar N. Bjornstad (ISBN 978-3-319-97487-3) https://www.springer.com/gp/book/9783319974866. The package contains functions to study the S(E)IR model, spatial and age-structured SIR models; time-series SIR and chain-binomial stochastic models; catalytic disease models; coupled map lattice models of spatial transmission and network models for social spread of infection. The package is also an advanced quantitative companion to the coursera Epidemics Massive Online Open Course https://www.coursera.org/learn/epidemics.

The most recent version can be installed from CRAN:

All code was written by Ottar N. Bjornstad (onb1@psu.edu) and is licensed under the CC-BY-NC Creative Commons attribution-noncommercial license (http://creativecommons.org/licenses/by-nc/3.0/). Please share & remix non-commercially, mentioning its origin.

CHECK OUT Simon Frosts http://epirecip.es/epicookbook/chapters/ob18/c5/r for an interactive port of the material!

Errata -- I already found a mistake.

source code for all shiny-apps in book (as well as some others) moved to https://github.com/objornstad/ecomodelmarkdowns

mov/ -- web-optimized animated gif's for the book.

syllabus.pdf -- The 15 week (3 hrs / week) syllabus for the class I taught in 2018.