scatterniche {adehabitat}R Documentation

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 basille@biomserv.univ-lyon1.fr
Clement Calenge clement.calenge@oncfs.gouv.fr

Examples

data(chamois)
cp <- count.points(chamois$locs, chamois$map)
chamois$map
li <- kasc2df(chamois$map)
cpi <- c(cp)[li$index]
## we focus on the distance to ecotone and on the slope,
## after centring and scaling (with the help of a PCA)
scatterniche(dudi.pca(li$tab[,2:3], scannf=FALSE)$tab, cpi)
scatterniche(dudi.pca(li$tab[,2:3], scannf=FALSE)$tab, cpi, pts=TRUE)


[Package adehabitat version 1.8.2 Index]