Below is example output of spatio-temporal smoothing the foot and mouth disease outbreak in Cumbria, UK from days 10 through 231.
The following code generates the above animation.
library(sparr) library(animation) data(fmd) fmd_case <- fmd$cases fmd_cont <- fmd$controls hlam <- LIK.spattemp(fmd_case) f.breve <- spattemp.density(fmd_case, h=hlam[1], lambda=hlam[2], tlim=c(10,230)) g.tilde <- bivariate.density(fmd_cont, h0=hlam[1]) rho.breve <- spattemp.risk(f=f.breve,g=g.tilde, tolerate=TRUE) colpal <- spatstat.options("image.colfun") fmdcolours <- colourmap(colpal(128),breaks=c(-80,seq(-7,4,length=128))) mytimes <- 10:230 animation::saveVideo( for(i in 1:length(mytimes)){ plot(rho.breve,tselect=mytimes[i],type="conditional",col=fmdcolours, tol.args=list(levels=c(0.05,0.0001),lty=2:1,drawlabels=FALSE), sleep=0,override.par=FALSE) title(xlab="Easting",ylab="Northing") }, video.name="fmd.mp4", other.opts = '-b:v 1M -pix_fmt yuv420p', ani.width=640, ani.height=640, interval=1/12)
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