GetPhylogeneticMeans: Get phylogenetic means for species (including ones with...

In bomeara/biosense: Functions for combining hyperspectral data with phylogenies and other traits

Description

Get phylogenetic means for species (including ones with missing data)

Usage

GetPhylogeneticMeans(data, phy, model = "BM", phylo_correlated = FALSE,
  pad.missing = TRUE, ...)

Arguments

data	A data.frame with first column species name, other columms trait data. NA are allowed
phy	A tree for all species in the data.
model	A model for phylopars. Options are "BM", "OU" "lambda", "kappa", "delta", "EB", "star"
phylo_correlated	If TRUE, parameters are estimated assuming traits are correlated. This can be quite slow.
...	Other options to pass to phylopars()

Details

Note that this will use same model (but different params) for each column. If you want to use different models, do different subsets of the data

Value

list containing means and variances for species, as well as the phylopars object

bomeara/biosense documentation built on May 12, 2019, 11:34 p.m.