TESS: Diversification Rate Estimation and Fast Simulation of Reconstructed Phylogenetic Trees under Tree-Wide Time-Heterogeneous Birth-Death Processes Including Mass-Extinction Events

Simulation of reconstructed phylogenetic trees under tree-wide time-heterogeneous birth-death processes and estimation of diversification parameters under the same model. Speciation and extinction rates can be any function of time and mass-extinction events at specific times can be provided. Trees can be simulated either conditioned on the number of species, the time of the process, or both. Additionally, the likelihood equations are implemented for convenience and can be used for Maximum Likelihood (ML) estimation and Bayesian inference.

Version: 2.1.0
Depends: ape, coda, deSolve
Imports: Rcpp (≥ 0.11.0)
LinkingTo: Rcpp
Suggests: knitr
Published: 2015-10-28
Author: Sebastian Hoehna and Michael R. May
Maintainer: Sebastian Hoehna <Sebastian.Hoehna at gmail.com>
License: GPL-3
NeedsCompilation: yes
Citation: TESS citation info
Materials: NEWS
In views: Phylogenetics
CRAN checks: TESS results


Reference manual: TESS.pdf
Vignettes: Bayesian Diversification Rate Analysis
Package source: TESS_2.1.0.tar.gz
Windows binaries: r-devel: TESS_2.1.0.zip, r-release: TESS_2.1.0.zip, r-oldrel: TESS_2.1.0.zip
OS X Snow Leopard binaries: r-release: TESS_2.0.0.tgz, r-oldrel: TESS_1.2.1.tgz
OS X Mavericks binaries: r-release: TESS_2.1.0.tgz
Old sources: TESS archive

Reverse dependencies:

Reverse imports: RPANDA
Reverse suggests: nLTT