diversitree: diversitree: comparative phylogenetic tests of diversification

Contains a number of comparative phylogenetic methods, mostly focussing on analysing diversification and character evolution. Contains implementations of BiSSE (Binary State Speciation and Extinction; Maddison et al. 2007: Syst. Biol. 56: 701) and its unresolved tree extensions (FitzJohn et al. 2009: Syst. Biol. 58: 595), MuSSE (Multiple State Speciation and Extinction), QuaSSE (Quantitative State Speciation and Extinction; FitzJohn 2010: Syst. Biol. 69: 619), and GeoSSE (Geographic State Speciation and Extinction; Goldberg et al. 2011: Syst. Biol.). Other included methods include Markov models of discrete and continuous trait evolution and constant rate speciation and extinction.

Version: 0.7-2
Depends: R (≥ 2.4), deSolve (≥ 1.7), ape, subplex
Suggests: numDeriv, tgp, multicore, minqa
Published: 2011-05-13
Author: Richard G. FitzJohn, with GeoSSE by Emma E. Goldberg.
Maintainer: Richard G. FitzJohn <fitzjohn at zoology.ubc.ca>
License: GPL (≥ 2)
URL: http://www.zoology.ubc.ca/prog/diversitree
SystemRequirements: fftw3 (>= 3.1.2)
In views: Phylogenetics
CRAN checks: diversitree results

Downloads:

Package source: diversitree_0.7-2.tar.gz
MacOS X binary: diversitree_0.7-2.tgz
Windows binary: diversitree_0.7-2.zip
Reference manual: diversitree.pdf
News/ChangeLog:ChangeLog
Old sources: diversitree archive