chaoUtility: chao lab utility

Description Usage Arguments Value Examples

phyExpandData: Expand branch abundance/incience and branch length

1	phyExpandData(x, labels, phy, datatype = "abundance")

`x`	a vector/matrix/list of species abundances or a matrix of raw incidence table.
`labels`	a vector of species name for input data.
`phy`	a phylogenetic tree with `"chaophytree"` class.
`datatype`	data type of input data: individual-based abundance data (`datatype = "abundance"`), species by sampling-units incidence matrix (`datatype = "incidence_raw"`).

a tibble tree with abundances.

data(phybird.new)
bird.abu <- phybird.new$abun
bird.inc <- phybird.new$inci
bird.lab <- rownames(phybird.new$abun)
bird.phy <- phybird.new$chaophytree
phyExpandData(bird.abu, labels=bird.lab, phy=bird.phy, datatype="abundance")
phyExpandData(bird.inc, labels=bird.lab, phy=bird.phy, datatype="incidence_raw")