dipper: Dippers

In openCR: Open Population Capture-Recapture

Dippers

Description

Lebreton et al. (1992) demonstrated Cormack-Jolly-Seber methods with a dataset on European Dipper (*Cinclus cinclus*) collected by Marzolin (1988) and the data have been much used since then. Dippers were captured annually over 1981–1987. We use the version included in the RMark package (Laake 2013).

Usage

dipperCH

Format

The format is a single-session secr capthist object. As these are non-spatial data, the traps attribute is NULL.

Details

Dippers were sampled in 1981–1987.

Source

MARK example dataset ‘ed.inp’. Also RMark (Laake 2013). See Examples.

References

Laake, J. L. (2013). RMark: An R Interface for Analysis of Capture–Recapture Data with MARK. AFSC Processed Report 2013-01, 25p. Alaska Fisheries Science Center, NOAA, National Marine Fisheries Service, 7600 Sand Point Way NE, Seattle WA 98115.

Lebreton, J.-D., Burnham, K. P., Clobert, J., and Anderson, D. R. (1992) Modeling survival and testing biological hypotheses using marked animals: a unified approach with case studies. Ecological Monographs 62, 67–118.

Marzolin, G. (1988) Polygynie du Cincle plongeur (*Cinclus cinclus*) dans les c?tes de Lorraine. L'Oiseau et la Revue Francaise d'Ornithologie 58, 277–286.

See Also

read.inp

Examples

m.array(dipperCH)

## Not run: 

# From file 'ed.inp' in MARK input format
datadir <- system.file('extdata', package = 'openCR')
dipperCH <- read.inp(paste0(datadir, '/ed.inp'), grouplabel='sex',
    grouplevels = c('Male','Female'))
intervals(dipperCH) <- rep(1,6)    
sessionlabels(dipperCH) <- 1981:1987   # labels only

# or extracted from the RMark package with this code
if (require(RMark)) {
    if (all (nchar(Sys.which(c('mark.exe','mark64.exe', 'mark32.exe'))) < 2))
        stop ("MARK executable not found; set e.g. MarkPath <- 'c:/Mark/'")
    data(dipper)                       # retrieve dataframe of dipper capture histories
    dipperCH2 <- unRMarkInput(dipper)  # convert to secr capthist object
    intervals(dipperCH2) <- rep(1,6)    
    sessionlabels(dipperCH2) <- 1981:1987   # labels only
} else message ("RMark not found")

# The objects dipperCH and dipperCH2 differ in the order of factor levels for 'sex'

## End(Not run)

openCR documentation built on Sept. 25, 2022, 5:06 p.m.