tiger: Tiger data

In multimark: Capture-Mark-Recapture Analysis using Multiple Non-Invasive Marks

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.

Source

Gopalaswamy, A.M., Royle, J.A., Hines, J.E., Singh, P., Jathanna, D., Kumar, N. and Karanth, K.U. 2012. Program SPACECAP: software for estimating animal density using spatially explicit capture-recapture models. Methods in Ecology and Evolution 3:1067-1072.

Royle, J.A., Karanth, K.U., Gopalaswamy, A.M. and Kumar, N.S. 2009. Bayesian inference in camera trapping studies for a class of spatial capture-recapture models. Ecology 90: 3233-3244.

See Also

markClosedSCR

Examples

data(tiger)
#plot the traps and available habitat within the study area
plotSpatialData(trapCoords=tiger$trapCoords,studyArea=tiger$studyArea)

# 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)

multimark documentation built on March 31, 2023, 9:33 p.m.