Representation of a quantitative variable in front of a phylogenetic tree
symbols.phylog.Rd
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
Daniel Chessel
Sébastien Ollier sebastien.ollier@u-psud.fr
See also
table.phylog
and dotchart.phylog
for many variables
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))