mkde (version 0.4)

plotMKDE: Make an image plot of an MKDE.

Description

Makes an image plot of an MKDE. If the MKDE is 3D, the contours will be based on the entire MKDE, but only one level indexed by z.index will be plotted.

Usage

plotMKDE(mkde.obj, z.index=1, probs=c(0.99, 0.95, 0.90, 0.75, 0.5, 0.0),
cmap=rev(rainbow(length(probs)-1)), add=FALSE, ...)

Value

No value is returned.

Arguments

mkde.obj

A 2D, 2.5D, or 3D MKDE object created with initialize2DMKDE or initialize3DMKDE and density initialized with initializeDensity

z.index

Index for the z-dimension of the density if a 3D MKDE

probs

Probabilities for image contours.

cmap

Color map for image plot.

add

FALSE to make a new plot, TRUE to add to existing plot

...

Additional graphical parameters.

Author

Jeff A. Tracey, PhD
USGS Western Ecological Research Center, San Diego Field Station

James Sheppard, PhD
San Diego Zoo Institute for Conservation Research

Details

A plot of the density for the specified level in the z-dimension (which should be 1, the defaul value, for a 2D or 2.5D MKDE) is generated.

Examples

library(terra)
fpath <- system.file("extdata", "pandadem.RDS", package="mkde")
pandadem <- terra::readRDS(fpath)
cell.sz <- 0.25*mean(res(pandadem))
ext <- ext(pandadem)
nx <- 4*ncol(pandadem)
ny <- 4*nrow(pandadem)
mkde.obj <- initializeMKDE2D(ext$xmin, cell.sz, nx, ext$ymin, cell.sz, ny)

# set up movement data
data(panda)
mv.dat <- initializeMovementData(panda$time, panda$x, panda$y, 
sig2obs=25.0, t.max=185.0)

# estimate density
dens.res <- initializeDensity(mkde.obj, mv.dat)
mkde.obj <- dens.res$mkde.obj
mv.dat <- dens.res$move.dat
plotMKDE(mkde.obj)