ape (version 3.0-10)

delta.plot: Delta Plots

Description

This function makes a $\delta$ plot following Holland et al. (2002).

Usage

delta.plot(X, k = 20, plot = TRUE, which = 1:2)

Arguments

Value

This function returns invisibly a named list with two components:

  • counts
{the counts for the histogram of $\delta_q$ values}delta.barthe mean $\delta$ value for each observation

Details

See Holland et al. (2002) for details and interpretation.

The computing time of this function is proportional to the fourth power of the number of observations ($O(n^4)$), so calculations may be very long with only a slight increase in sample size.

References

Holland, B. R., Huber, K. T., Dress, A. and Moulton, V. (2002) Delta plots: a tool for analyzing phylogenetic distance data. Molecular Biology and Evolution, 12, 2051--2059.

See Also

dist.dna

Examples

Run this code
data(woodmouse)
d <- dist.dna(woodmouse)
delta.plot(d)
layout(1)
delta.plot(d, 40, which = 1)

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