locate.fossil {phytools}R Documentation

Locate a fossil lineage in a tree using continuous characters


This function uses ML to place a fossil lineage into a tree using continuous traits.


locate.fossil(tree, X, ...)



an object of class "phylo".


a matrix with continuous character data.


optional arguments including time.constraint which can be a scalar (positive height above the root of the fossil or negative time before present) or a vector (age range of fossil, either positive or negative); edge.constraint, which is equivalent to constraint in locate.yeti; plot, rotate, and quiet, which have the same interpretation (and defaults) as the equivalent arguments in locate.yeti.


Optimized tree as an object of class "phylo".


Liam Revell liam.revell@umb.edu


Felsenstein, J. (1981) Maximum likelihood estimation of evolutionary trees from continuous characters. American Journal of Human Genetics, 25, 471-492.

Felsenstein, J. (2002) Quantitative characters, phylogenies, and morphometrics. In: MacLeod, N. and P. Forey (Eds.) Morphology, Shape and Phylogeny (pp. 27-44). Taylor and Francis, London.

Revell, L. J. (2012) phytools: An R package for phylogenetic comparative biology (and other things). Methods Ecol. Evol., 3, 217-223.

Revell, L. J., D. L. Mahler, R. G. Reynolds, and G. J. Slater. (In press) Placing cryptic, recently extinct, or hypothesized taxa into an ultrametric phylogeny using continuous character data: A case study with the lizard Anolis roosevelti. Evolution.

[Package phytools version 0.4-60 Index]