TreeSimGM (1.2)

0 users

Simulating Phylogenetic Trees under a General Model.

http://cran.r-project.org/web/packages/TreeSimGM

The package is a flexible simulation tool for phylogenetic trees under a general model. It is possible to assume any probability distribution for the waiting time until speciation and extinction independently. Thus, TreeSimGM allows to simulate stochastic phylogenetic trees using any probability distribution and parameters for speciation and extinction. The speciation modes have all binary splits and are: (i) symmetric, where for every speciation event new waiting times until speciation and extinction are drawn for both daughter lineages; and (ii) asymmetric, where a speciation event results in one species with new waiting times, and another that carries the extinction time and age of its ancestor. Those two modes were inspired by allopatric and peripatric speciation respectively.Both models (symmetric and asymmetric) were created and implemented so that different processes (distributions) for speciation and extinction could be independently and explicitly specified. It is also possible to have an implicit extinction process by setting the extinction rate to zero.

Maintainer: Oskar Hagen
Author(s): Oskar Hagen, Tanja Stadler

License: GPL-2

Uses: TreeSim

Released over 2 years ago.


2 previous versions

Ratings

Overall:

  (0 votes)

Documentation:

  (0 votes)

Log in to vote.

Reviews

No one has written a review of TreeSimGM yet. Want to be the first? Write one now.


Related packages:(20 best matches, based on common tags.)


Search for TreeSimGM on google, google scholar, r-help, r-devel.

Visit TreeSimGM on R Graphical Manual.