paleoTS-package: Analysis of evoltuionary time-series
Description
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).
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. Evolution62:700-710.
Hunt, G. 2008. Gradual or pulsed evolution: when should punctuational explanations be preferred? Paleobiology34:In press.