adehabitatHS (version 0.3.18)

scatterniche: 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

Mathieu Basille
Clement Calenge

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)