stsplot_spacetime: Animated Map of Disease Incidence (DEPRECATED)

In surveillance: Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena

Animated Map of Disease Incidence (DEPRECATED)

Description

For each period (row) or for the overall period of the observed matrix of the "sts" object, a map showing the counts by region is produced. It is possible to redirect the output into files, e.g., to generate an animated GIF.

Usage

stsplot_spacetime(x, type, legend = NULL, opts.col = NULL, labels = TRUE,
                  wait.ms = 250, cex.lab = 0.7, verbose = FALSE,
                  dev.printer = NULL, ...)

Arguments

x	an object of class "sts".
type	a formula (see stsplot). For a map aggregated over time (no animation), use observed ~ 1 | unit, otherwise observed ~ 1 | unit * time.
legend	a list containing the following items used for coloring dx position increments in x direction dy position increments in y direction x position in x y position in y once a Boolean; if TRUE then only shown once If NULL then a default legend is used.
opts.col	a list containing the two elements ncolors number of colors to use for plotting use.color a Boolean; if TRUE then colors will be used in the palette, otherwise grayscale
labels	Boolean whether to add labels
wait.ms	Number of milliseconds to wait between each plot
cex.lab	cex of the labels
verbose	Boolean whether to write out extra information
dev.printer	Either NULL (default), which means that plotting is only to the screen, or a list with elements device, extension, width, height, and name (with defaults png, ".png", 640, 480, and "Rplot", respectively) to dev.print the plots to files (only works in interactive sessions). This option is more or less obsolete since the animation package provides better features for output to files.
...	Extra arguments sent to the plot function.

Note

The animate.sts method provides a re-implementation and supersedes this function!

Author(s)

Michael Höhle

See Also

Other stsplot types, and animate.sts for the new implementation.

Examples

data("ha.sts")
print(ha.sts)

## Not run: 
# map of total counts by district (compare old vs. new implementation)
plot(ha.sts, type = observed ~ 1 | unit) # deprecated
plot(ha.sts, type = observed ~ unit, labels = TRUE)

# space-time animation
plot(aggregate(ha.sts,nfreq=13), type = observed ~ 1 | unit * time)

#print the frames to a png device
#and do the animation without extra sleeping between frames
imgname <- file.path(tempdir(), "berlin")
plot(aggregate(ha.sts,nfreq=13), type = observed ~ 1 | unit * time,
     wait.ms=0, dev.printer=list(name=imgname))

#Use ImageMagick (you might have to adjust the path to 'convert')
system(paste0("convert -delay 50 ", imgname,
              "*.png ", imgname, "-animated.gif"))

## End(Not run)

surveillance documentation built on Nov. 4, 2024, 3 a.m.