as.Newick: Write a phylogenetic tree in Newick format

In TreeTools: Create, Modify and Analyse Phylogenetic Trees

Write a phylogenetic tree in Newick format

Description

as.Newick() creates a character string representation of a phylogenetic tree, in the Newick format, using R's internal tip numbering. Use RenumberTips() to ensure that the internal numbering follows the order you expect.

Usage

as.Newick(x)

## S3 method for class 'phylo'
as.Newick(x)

## S3 method for class 'list'
as.Newick(x)

## S3 method for class 'multiPhylo'
as.Newick(x)

Arguments

x	Object to convert to Newick format. See Usage section for supported classes.

Value

as.Newick() returns a character string representing tree in Newick format.

Author(s)

Martin R. Smith ([e-mail])

See Also

• Retain leaf labels: NewickTree()

• Change R's internal numbering of leaves: RenumberTips()

• Write tree to text or file: ape::write.tree()

Examples

trees <- list(BalancedTree(1:8), PectinateTree(8:1))
trees <- lapply(trees, RenumberTips, 1:8)
as.Newick(trees)

TreeTools documentation built on Sept. 11, 2024, 8:27 p.m.