R: Representation of a quantitative variable in front of a...

symbols.phylog {ade4}

R Documentation

Representation of a quantitative variable in front of a phylogenetic tree

Description

symbols.phylog draws the phylogenetic tree and represents the values of the variable by symbols (squares or circles) which size is proportional to value. White symbols correspond to values which are below the mean, and black symbols correspond to values which are over.

Usage

symbols.phylog(phylog, circles, squares, csize = 1, clegend = 1,
 sub = "", csub = 1, possub = "topleft")

Arguments

`phylog`	an object of class `phylog`
`circles`	a vector giving the radii of the circles
`squares`	a vector giving the length of the sides of the squares
`csize`	a size coefficient for symbols
`clegend`	a character size for the legend used by `par("cex")*clegend`
`sub`	a string of characters to be inserted as legend
`csub`	a character size for the legend, used with `par("cex")*csub`
`possub`	a string of characters indicating the sub-title position ("topleft", "topright", "bottomleft", "bottomright")

Author(s)

Daniel Chessel
Sébastien Ollier sebastien.ollier@u-psud.fr

Examples

data(mjrochet)
mjrochet.phy <- newick2phylog(mjrochet$tre)
tab0 <- data.frame(scalewt(log(mjrochet$tab)))
par(mfrow=c(3,2))
for (j in 1:6) {
    w <- tab0[,j]
    symbols.phylog(phylog = mjrochet.phy, w, csi = 1.5, cleg = 1.5,
     sub = names(tab0)[j], csub = 3)
}
par(mfrow=c(1,1))