scatter.enfa: Scatter Plot of the Results of the ENFA
In adehabitat: Analysis of Habitat Selection by Animals

Description Usage Arguments Details Author(s) References See Also Examples

Performs the scatter diagrams of objects of class enfa.

## S3 method for class 'enfa'
scatter(x, xax = 1, yax = 2, pts = FALSE, nc = TRUE, 
             percent = 95, clabel = 1, side = c("top", "bottom", "none"),
             Adensity, Udensity, Aangle, Uangle, Aborder, Uborder, 
             Acol, Ucol, Alty, Ulty, Abg, Ubg, Ainch, Uinch, ...)

`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
`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 for drawing the border of the available pixels polygon. See `polygon` for more details
`Uborder`	the color for drawing 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

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.

Mathieu Basille basille@ase-research.org

Basille, M., Calenge, C., Marboutin, E., Andersen, R. & Gaillard, J.M. (2008) Assessing habitat selection using multivariate statistics: Some refinements of the ecological-niche factor analysis. Ecological Modelling, 211, 233–240.

enfa, scatter

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
tmp <- data2enfa(map, locs[tmp, c("X","Y")])
(enfa1 <- enfa(dudi.pca(tmp$tab, scannf=FALSE),
               tmp$pr, scannf = FALSE))
scatter(enfa1)