surveillance (version 1.23.1)

fluBYBW: Influenza in Southern Germany

Description

Weekly number of influenza A & B cases in the 140 districts of the two Southern German states Bavaria and Baden-Wuerttemberg, for the years 2001 to 2008. These surveillance data have been analyzed originally by Paul and Held (2011) and more recently by Meyer and Held (2014).

Usage

data(fluBYBW)

Format

An sts object containing \(416\times 140\) observations starting from week 1 in 2001.

The population slot contains the population fractions of each district at 31.12.2001, obtained from the Federal Statistical Office of Germany.

The map slot contains an object of class "SpatialPolygonsDataFrame".

References

Paul, M. and Held, L. (2011) Predictive assessment of a non-linear random effects model for multivariate time series of infectious disease counts. Statistics in Medicine, 30, 1118-1136.

Meyer, S. and Held, L. (2014): Power-law models for infectious disease spread. The Annals of Applied Statistics, 8 (3), 1612-1639. tools:::Rd_expr_doi("10.1214/14-AOAS743")

Examples

data("fluBYBW")

# Count time series plot
plot(fluBYBW, type = observed ~ time)

# Map of disease incidence (per 100000 inhabitants) for the year 2001
plot(fluBYBW, type = observed ~ unit, tps = 1:52, total.args = list(),
     population = fluBYBW@map$X31_12_01 / 100000)
# the overall rate for 2001 shown in the bottom right corner is
sum(observed(fluBYBW[1:52,])) / sum(fluBYBW@map$X31_12_01) * 100000

if (FALSE) {
# Generating an animation takes a while.
# Here we take the first 20 weeks of 2001 (runtime: ~3 minutes).
# The full animation is available in Supplement A of Meyer and Held (2014)
if (require("animation")) {
    oldwd <- setwd(tempdir())  # to not clutter up the current working dir
    saveHTML(animate(fluBYBW, tps = 1:20),
             title="Evolution of influenza in Bayern and Baden-Wuerttemberg",
             ani.width=500, ani.height=600)
    setwd(oldwd)
}
}