paleoTS-package {paleoTS} | R Documentation |
This package includes a variety of functions useful for analyzing evoltuionary time-series,
particularly for paleontological data. The functions are useful for analyzing sequences in terms
of statistical models, with three models implemented: directional evolution (modeled as a general random walk),
unbiased random walks, and stasis. These analyses are outlined in Hunt (2006). Two different parameterizations
can be used to fit these models, the default (based on ancestor-descendant differences), and a joint method, which
uses all sample means jointly to fit the model. The joint parameterization can also be used to fit an Ornstein-Uhlenbeck model,
which is intermediate between a random walk and stasis (see Hunt et al., 2008).
Starting with v0.3-1, functions are included that allow fitting of models of punctuated evolution, and other models in which
evolutionary dynamics change throughout an observed evolutionary sequence (see Hunt 2008).
Package: | paleoTS |
Type: | Package |
Version: | 0.3-1 |
Date: | 2008-01-16 |
License: | GPL 2 |
Gene Hunt
Hunt, G. 2006. Fitting and comparing models of phyletic evolution: random walks and beyond. Paleobiology32:578–601.
Hunt, G., M. Bell & M. Travis. 2008. Evolution towards a new adaptive optimum: phenotypic evolution in a fossil stickleback lineage. Evolution 62:700-710.
Hunt, G. 2008. Gradual or pulsed evolution: when should punctuational explanations be preferred? Paleobiology34:In press.
x <- sim.GRW(ns=30, ms=0, vs=0.3) # simulate unbiased random walk fit3models(x) # compare fits of directional, random walk, and stasis models