phyloMean: Calculation of phylogenetically corrected mean.
In ghthomas/motmot: Models of Trait Macroevolution on Trees

Description Usage Arguments Value Note Author(s) References

This function calculates the phylogenetic mean of the data given the tree and model of evolution

1	phyloMean(rateData, rate = NULL, common.mean = FALSE, lambda.est, lambda, meserr)

`rateData`	an object of class "rateData"
`rate`	a vector of relative rate parameters. The length of the vector is equal to the number of rates being estimated. If `rate=NULL` then rates are equal.
`common.mean`	a logical specififying whether each rate category should have its own mean (`common.mean=FALSE`) or all categories should have the same mean (`common.mean=FALSE`). See Thomas et al. (2009) for a discussion on the impact of assumptions about mean on rate estimates.
`lambda.est`	Logical. Fit Pagel's lambda.
`lambda`	Numeric value for lambda from 0-1.
`meserr`	Logical. Include measurement error.

`mu`	phylogenetically corrected mean

The means are output as treatment contrasts.

Gavin Thomas, Rob Freckleton

Thomas GH, Freckleton RP, & Szekely T. 2006. Comparative analyses of the influence of developmental mode on phenotypic diversification rates in shorebirds. Proceedings of the Royal Society B 273, 1619-1624.

Thomas GH, Meiri S, & Phillimore AB. 2009. Body size diversification in Anolis: novel environments and island effects. Evolution 63, 2017-2030.

ghthomas/motmot documentation built on July 31, 2018, 12:11 a.m.