phangorn (version 2.1.1)

distanceHadamard: Distance Hadamard

Description

Distance Hadamard produces spectra of splits from a distance matrix.

Usage

distanceHadamard(dm, eps=0.001)

Arguments

dm

A distance matrix.

eps

Threshold value for splits.

Value

distanceHadamard returns a matrix. The first column contains the distance spectra, the second one the edge-spectra. If eps is positive an object of with all splits greater eps is returned.

References

Hendy, M. D. and Penny, D. (1993). Spectral Analysis of Phylogenetic Data. Journal of Classification, 10, 5-24.

See Also

hadamard, lento, plot.networx, neighborNet

Examples

data(yeast)
dm = dist.hamming(yeast)
dm = as.matrix(dm)
fit = distanceHadamard(dm)
lento(fit)
plot(as.networx(fit), "2D")