phyloCovar: Calculation of Brownian (co)variance using independent...
In motmot: Models of Trait Macroevolution on Trees
Description
Usage
Arguments
Value
Author(s)
References
Description
Calculates the Brownian variance (single trait) or variance-covariance matrix (mutliple traits) using phylogenetically independent contrasts.
Usage
1
phyloCovar(x, phy, estimator = "unbiased")
Arguments
x
A continuous trait
phy
An object of class "phylo" (see ape package).
estimator
Should Brownian variance (or covariance) be based on the unbiased ("unbiased" - default) or maximum likelihood ("ML") estimator.
Value
brownianVariance
Brownian variance (or covariance for multiple traits) given the data and phylogeny
Author(s)
Gavin Thomas, Rob Freckleton
References
Felsenstein J. 1973. Maximum-likelihood estimation of evolutionary trees from continuous characters. Am. J. Hum. Genet. 25, 471-492.
Felsenstein J. 1985. Phylogenies and the comparative method. American Naturalist 125, 1-15.
Freckleton RP & Jetz W. 2009. Space versus phylogeny: disentangling phylogenetic and spatial signals in comparative data. Proc. Roy. Soc. B 276, 21-30.
motmot documentation built on May 2, 2019, 4:48 p.m.
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Description Usage Arguments Value Author(s) References
Description
Calculates the Brownian variance (single trait) or variance-covariance matrix (mutliple traits) using phylogenetically independent contrasts.
Usage
1 | phyloCovar(x, phy, estimator = "unbiased")
|
Arguments
x |
A continuous trait |
phy |
An object of class "phylo" (see ape package). |
estimator |
Should Brownian variance (or covariance) be based on the unbiased ("unbiased" - default) or maximum likelihood ("ML") estimator. |
Value
brownianVariance |
Brownian variance (or covariance for multiple traits) given the data and phylogeny |
Author(s)
Gavin Thomas, Rob Freckleton
References
Felsenstein J. 1973. Maximum-likelihood estimation of evolutionary trees from continuous characters. Am. J. Hum. Genet. 25, 471-492.
Felsenstein J. 1985. Phylogenies and the comparative method. American Naturalist 125, 1-15.
Freckleton RP & Jetz W. 2009. Space versus phylogeny: disentangling phylogenetic and spatial signals in comparative data. Proc. Roy. Soc. B 276, 21-30.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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