esaplotsecr: Mask Buffer Diagnostic Plot (internal)

Description Usage Arguments Details Value See Also

Description

Internal function used to plot effective sampling area (Borchers and Efford 2008) as a function of increasing buffer width given an ‘secr’ object

Usage

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esa.plot.secr (object, max.buffer = NULL, max.mask = NULL,
    thin = 0.1, poly = NULL, session = 1, plt = TRUE, as.density
    = TRUE, add = FALSE, overlay = TRUE, ...)

Arguments

object

secr object output from secr.fit

max.buffer

maximum width of buffer in metres

max.mask

mask object

thin

proportion of mask points to retain in plot and output

poly

matrix of two columns interpreted as the x and y coordinates of a bounding polygon (optional)

session

vector of session indices (used if object spans multiple sessions)

plt

logical to plot results

as.density

logical; if TRUE the y-axis is n / esa

add

logical to add line to an existing plot

overlay

logical; if TRUE then automatically add = TRUE for plots after the first

...

graphical arguments passed to plot() and lines()

Details

esa.plot.secr provides a wrapper for esa.plot that is called internally from esa.plot when it is presented with an secr object. Arguments of esa.plot such as detectfn are inferred from the fitted model.

If max.mask is not specified then a maximal mask of type ‘trapbuffer’ is constructed using max.buffer and the spacing of the mask in object. In this case, if max.buffer is not specified then it is set either to the width of the existing plot (add = TRUE) or to 10 x sigma-hat from the fitted model in object (add = FALSE).

Value

see esa.plot

See Also

esa.plot, mask, pdot, make.mask, mask.check, Detection functions


secr documentation built on May 30, 2017, 12:15 a.m.