plethodon: plethodon

In laser: Likelihood Analysis of Speciation/Extinction Rates from Phylogenies

Description

Branching times for plethodontid salamanders from Highton and Larson (1979) and analyzed by Nee et al. 1994 and Nee 2001

Usage

data(plethodon)

Format

The data are represented by a numeric vector of branching times

Source

Highton, R., and A. Larson. 1979. The genetic relationships of the salamanders of the genus Plethodon. Syst. Zool. 28:579 - 599.

References

Nee, S., E. C. Holmes, R. M. May, and P. H. Harvey. 1994a. Extinction rates can be estimated from molecular phylogenies. Philos. Trans. R. Soc. Lond. B 344:77-82.

Nee, S. 2001. Inferring speciation rates from phylogenies. Evolution 55:661-668.

Examples

data(plethodon)
plotLtt(plethodon)

Example output

Loading required package: ape
Loading required package: geiger
 [1] 0.6931472 1.0986123 1.3862944 1.6094379 1.7917595 1.9459101 2.0794415
 [8] 2.1972246 2.3025851 2.3978953 2.4849066 2.5649494 2.6390573 2.7080502
[15] 2.7725887 2.8332133 2.8903718 2.9444390 2.9957323 3.0445224 3.0910425
[22] 3.1354942 3.1780538 3.2188758 3.2580965 3.2958369

laser documentation built on Jan. 15, 2017, 4:49 p.m.