phangorn (version 2.1.1)

lento: Lento plot

Description

The lento plot represents support and conflict of splits/bipartitions.

Usage

lento(obj, xlim = NULL, ylim = NULL, main = "Lento plot", sub = NULL, xlab = NULL,  ylab = NULL, bipart=TRUE, trivial=FALSE, col = rgb(0, 0, 0, 0.5),...)

Arguments

obj

an object of class phylo, multiPhylo or splits

xlim

graphical parameter

ylim

graphical parameter

main

graphical parameter

sub

graphical parameter

xlab

graphical parameter

ylab

graphical parameter

bipart

plot bipartition information.

trivial

logical, whether to present trivial splits (default is FALSE).

col

color for the splits / bipartition.

...

Further arguments passed to or from other methods.

Value

lento returns a plot.

References

Lento, G.M., Hickson, R.E., Chambers G.K., and Penny, D. (1995) Use of spectral analysis to test hypotheses on the origin of pinninpeds. Molecular Biology and Evolution, 12, 28-52.

See Also

as.splits, hadamard

Examples

data(yeast)
yeast.ry = acgt2ry(yeast)
splits.h = h2st(yeast.ry)
lento(splits.h, trivial=TRUE)