scatterniche: Display the Niche in the Ecological Space

In adehabitatHS: Analysis of Habitat Selection by Animals

Display the Niche in the Ecological Space

Description

scatterniche displays the niche in the Ecological space (multidimensional space defined by habitat variables).

Usage

scatterniche(x, pr, xax = 1, yax = 2, pts = FALSE,
             percent = 95, clabel = 1,
             side = c("top", "bottom", "none"),
             Adensity, Udensity, Aangle, Uangle, Aborder,
             Uborder, Acol, Ucol, Alty, Ulty, Abg,
             Ubg, Ainch, Uinch, ...)

Arguments

x	a data frame giving the value of environmental variables (columns) in resource units (rows, e.g. the pixels of a raster map)
pr	a vector giving the utilisation weight for each resource unit
xax	the column number for the x-axis
yax	the column number for the y-axis
pts	logical. Whether the points should be drawn. If FALSE, minimum convex polygons are displayed
percent	100 minus the proportion of outliers to be excluded from the computation of the minimum convex polygons
clabel	a character size for the columns
side	if "top", the legend of the kept axis is upside, if "bottom" it is downside, if "none" no legend
Adensity	the density of shading lines, in lines per inch, for the available pixels polygon. See polygon for more details
Udensity	the density of shading lines, in lines per inch, for the used pixels polygon. See polygon for more details
Aangle	the slope of shading lines, given as an angle in degrees (counter-clockwise), for the available pixels polygon
Uangle	the slope of shading lines, given as an angle in degrees (counter-clockwise), for the used pixels polygon
Aborder	the color to draw the border of the available pixels polygon. See polygon for more details
Uborder	the color to draw the border of the used pixels polygon. See polygon for more details
Acol	the color for filling the available pixels polygon. if pts==FALSE, the color for the points corresponding to available pixels
Ucol	the color for filling the used pixels polygon. if pts==FALSE, the color for the points corresponding to used pixels
Alty	the line type for the available pixels polygon, as in par.
Ulty	the line type for the used pixels polygon, as in par.
Abg	if pts==TRUE, background color for open plot symbols of available pixels
Ubg	if pts==TRUE, background color for open plot symbols of used pixels
Ainch	if pts==TRUE, heigth in inches of the available pixels
Uinch	if pts==TRUE, heigth in inches of the largest used pixels
...	further arguments passed to or from other methods

Author(s)

Mathieu Basille [e-mail]
Clement Calenge [e-mail]

Examples

data(chamois)
cpi <- slot(count.points(chamois$locs, chamois$map),"data")[,1]
chamois$map

tab <- slot(chamois$map, "data")

## we focus on the distance to ecotone and on the slope,
## after centring and scaling (with the help of a PCA)
scatterniche(dudi.pca(tab[,2:3], scannf=FALSE)$tab, cpi)
scatterniche(dudi.pca(tab[,2:3], scannf=FALSE)$tab, cpi, pts=TRUE)

adehabitatHS documentation built on Sept. 11, 2024, 7:38 p.m.