scatter.enfa {adehabitat}R Documentation

Scatter Plot of the Results of the ENFA

Description

Performs the scatter diagrams of objects of class enfa.

Usage

scatter.enfa(x, xax = 1, yax = 2, pts = FALSE,
             nc = TRUE, percent = 95, 
             clabel = 1, side = c("top", "bottom", "none"),
             csub = 1, Adensity, Udensity, Aangle, Uangle,
             Aborder, Uborder, Acol, 
             Ucol, Alty, Ulty, Apch, Upch,
             Abg, Ubg, Acex, Ucex, ...)

Arguments

x an object of class enfa
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
nc whether or not the niche center should be 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
csub a character size for the 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.
Apch if pts==FALSE, plotting "character", i.e., symbol to use for the available pixels. See points for more details
Upch if pts==FALSE, plotting "character", i.e., symbol to use for the used pixels. See points
Abg if pts==FALSE, background color for open plot symbols of available pixels.
Ubg if pts==FALSE, background color for open plot symbols of used pixels.
Acex if pts==FALSE, character expansion of available pixels: a numerical vector
Ucex if pts==FALSE, character expansion of used pixels: a numerical vector
... further arguments passed to or from other methods

Details

scatter.enfa displays a factorial map of pixels, as well as the projection of the vectors of the canonical basis multiplied by a constant of rescaling. The kept axes for the plot are specified in a corner.

Author(s)

Mathieu Basille basille@biomserv.univ-lyon1.fr

See Also

enfa, scatter

Examples

## Not run: 
data(lynxjura)

map <- lynxjura$map

## We keep only "wild" indices.
tmp <- lynxjura$locs[,4]!="D"
locs <- lynxjura$locs[tmp, c("X","Y")]

## We perform a square root transformation
## of the variable to normalize it
map[,4] <- sqrt(map[,4])

## We perform the ENFA
(enfa1 <- enfa(map, locs[tmp, c("X","Y")],
                scannf = FALSE))
scatter(enfa1)
## End(Not run)

[Package adehabitat version 1.2-1 Index]