addSubNode: Add subnode to phylo4d_ext object

In phyext: An extension of some of the classes in phylobase. Tree objects now support subnodes on branches

Description

Add a subnode to phylo4d_ext object.

Usage

addSubNode(x, anc, dec, position, dataf, pos.is.fraction = FALSE)

Arguments

x	a phylo4d_ext object
anc	Node id of the ancestor on the branch on which the subnode is to be added
dec	Node id of the descendant on the branch on which the subnode is to be added
position	The position on the branch where the subnode is to be placed. It is stored as a faction of the branches' total length and is in relation to the ancestral node. In other words, a smaller value will be closer to the ancestral node.
dataf	a data.frame object which should be structurally similar to the data frame of the phylo4d object (data slot). It should contain data entries for the subnode.
pos.is.fraction	Specify whether position argument a fraction of the branch length or an absolute number.

Details

This is the main function in RBrownie for adding subnodes manually. It is used internally when reading in SIMMAP-formatted newick trees and can also be used to edit phylo4d_ext trees.

Value

Returns x with a new subnode added.

See Also

phyext, phyextPlot

phyext documentation built on May 2, 2019, 5:19 p.m.