multimark (version 2.1.6)

tiger: Tiger data

Description

Example tiger data for multimark package.

Format

These spatial capture-recapture data with a single mark type are summarized in a list of length 3 containing the following objects:

Enc.Mat is a 44 x (noccas*ntraps) matrix containing observed encounter histories for 44 tigers across noccas=48 sampling occasions and ntraps=120 traps.

trapCoords is a matrix of dimension ntraps x (2 + noccas) indicating the Cartesian coordinates and operating occasions for the traps, where rows correspond to trap, the first column the x-coordinate, and the second column the y-coordinate. The last noccas columns indicate whether or not the trap was operating on each of the occasions, where `1' indciates the trap was operating and `0' indicates the trap was not operating.

studyArea is a 3-column matrix containing the coordinates for the centroids of the contiguous grid of cells that define the study area and available habitat. Each row corresponds to a grid cell. The first 2 columns indicate the Cartesian x- and y-coordinate for the centroid of each grid cell, and the third column indicates whether the cell is available habitat (=1) or not (=0). The grid cells are 0.336 km^2 resolution.

These data were obtained from the R package SPACECAP and modified by projecting onto a regular rectangular grid consisting of square grid cells (as is required by the spatial capture-recapture models in multimark).

Details

We thank Ullas Karanth, Wildlife Conservation Society, for providing the tiger data for use as an example with this package.

See Also

markClosedSCR

Examples

data(tiger)
#plot the traps and available habitat within the study area
plotSpatialData(trapCoords=tiger$trapCoords,studyArea=tiger$studyArea)
# \donttest{
# This example is excluded from testing to reduce package check time
# Example uses unrealistically low values for nchain, iter, and burnin

# Fit spatial model to tiger data
Enc.Mat<-tiger$Enc.Mat
trapCoords<-tiger$trapCoords
studyArea<-tiger$studyArea
tiger.dot<-markClosedSCR(Enc.Mat,trapCoords,studyArea,iter=100,adapt=50,burnin=50)
summary(tiger.dot$mcmc)# }