Published by the Foundation for Open Access Statistics Editors-in-chief: Bettina Grün, Torsten Hothorn, Rebecca Killick, Edzer Pebesma, Achim Zeileis    ISSN 1548-7660; CODEN JSSOBK
Authors: Sebastian Meyer, Leonhard Held, Michael Höhle
Title: Spatio-Temporal Analysis of Epidemic Phenomena Using the R Package surveillance
Abstract: The availability of geocoded health data and the inherent temporal structure of communicable diseases have led to an increased interest in statistical models and software for spatio-temporal data with epidemic features. The open source R package surveillance can handle various levels of aggregation at which infective events have been recorded: individual-level time-stamped geo-referenced data (case reports) in either continuous space or discrete space, as well as counts aggregated by period and region. For each of these data types, the surveillance package implements tools for visualization, likelihoood inference and simulation from recently developed statistical regression frameworks capturing endemic and epidemic dynamics. Altogether, this paper is a guide to the spatio-temporal modeling of epidemic phenomena, exemplified by analyses of public health surveillance data on measles and invasive meningococcal disease.

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Paper: Spatio-Temporal Analysis of Epidemic Phenomena Using the R Package surveillance     Download PDF (Downloads: 4538)
surveillance_1.13.1.tar.gz: R source package Download (Downloads: 382; 4MB)
v77i11.R: R replication code Download (Downloads: 449; 16KB)

DOI: 10.18637/jss.v077.i11

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Paper: Creative Commons Attribution 3.0 Unported License
Code: GNU General Public License (at least one of version 2 or version 3) or a GPL-compatible license.