| plot.capthist {secr} | R Documentation |
Display a plot of detection (capture) histories over a map of the detectors.
## S3 method for class 'capthist':
plot(x, rad = 5, hidetraps = FALSE, tracks =
FALSE, title = TRUE, subtitle = TRUE, add = FALSE, varycol = FALSE,
icolours = NULL, randcol = FALSE,
lab1cap = FALSE, laboffset = 4, ncap = FALSE,
splitocc = NULL, col2 = "green",
cappar = list(cex = 1.3, pch = 16, col = "blue"),
trkpar = list(col = "blue", lwd = 1),
labpar = list(cex = 0.7, col = "black"), ...)
x |
an object of class capthist |
rad |
radial displacement of dot indicating each capture event from the detector location (used to separate overlapping points) |
hidetraps |
logical indicating whether trap locations should be displayed |
tracks |
logical indicating whether consecutive locations of individual animals should be joined by a line |
title |
logical or character string for title |
subtitle |
logical or character string for subtitle |
add |
logical for whether to add to existing plot |
varycol |
logical for whether to distinguish individuals by colour |
icolours |
vector of individual colours (when varycol = TRUE) |
randcol |
logical to use random colours (varycol = TRUE) |
lab1cap |
logical for whether to label the first capture of each animal |
laboffset |
distance by which to offset labels from points |
ncap |
logical to display the number of detections per trap per occasion |
splitocc |
optional occasion from which second colour is to be used |
col2 |
second colour (used with splitocc) |
cappar |
list of named graphical parameters for detections (passed to par) |
trkpar |
list of named graphical parameters for tracks (passed to par) |
labpar |
list of named graphical parameters for labels (passed to par) |
... |
arguments to be passed to lines if tracks are plotted |
A plot is generated in the style of Density (Efford 2007)
using eqscplot from the MASS library.
If title = FALSE no title is displayed; if title = TRUE,
the session identifer is used for the title.
If subtitle = FALSE no subtitle is displayed; if subtitle
= TRUE, the subtitle gives the numbers of occasions, detections and
individuals.
If icolours = NULL and varycol = TRUE then a vector of
colours is generated automatically as terrain.colors((nrow(x)+1) * 1.5).
If there are too few values in icolours for the number of
individuals then colours will be re-used.
If x is a multi-session capthist object then a separate plot is
produced for each session. Use par(mfrow = c(nr, nc)) to allow a
grid of plots to be displayed simultaneously (nr rows x nc columns).
The number of detections in x.
Murray Efford murray.efford@otago.ac.nz
Efford, M. G. (2007) Density 4.1: software for spatially explicit capture–recapture. Department of Zoology, University of Otago, Dunedin, New Zealand. http://www.otago.ac.nz/density
demotrap <- make.grid()
tempcapt <- sim.capthist(demotrap,
popn = list(D = 5, buffer = 50),
detectpar = list(g0 = 0.15, sigma = 30))
plot(tempcapt, border = 10, rad = 3, tracks = TRUE,
lab1cap = TRUE, laboffset = 2.5)