sister_taxa: Identify sister taxa in a phylogeny
In vincenzoaellis/malaviR: An R interface to MalAvi

Description Usage Arguments Details Value Note Author(s) Examples

View source: R/sister_taxa.R

The function identifies sister taxa (tips on the phylogeny) descending from a particular node in a phylogeny.

1	sister_taxa(tree, node)

`tree`	an object of class `phylo`.
`node`	node number (see details). Can be one or multiple nodes.

The node numbers in an object of class phylo can be visualized by calling nodelabels() after plotting the phylogeny. The sister_taxa() function uses these numbers, so the first node (i.e., the most basal node) number will always be equal to the number of taxa plus one.

Returns an object of class data.frame.

The sister taxa are grouped by the variable sister.clade as either a 1 or a 2 to indicate the different sides of the node in question. The actual numerical values of sister.clade are arbitrary, they could have been called "A" and "B".

Vincenzo A. Ellis vincenzoaellis@gmail.com

## simulate a phylogenetic tree using the rtree function in the ape package
library(ape)
tree <- rtree(n=10)

## check out node numbers
plot(tree)
nodelabels()

## extract all sister taxa from the root
sister_taxa(tree, 11)