read_annotated: Read an annotated phylogenetic tree

In phylotate: Phylogenies with Annotations

Description

This function takes the given file, containing data in either NEXUS or Newick format, and returns annotated phylogenetic trees.

Usage

read_annotated(filename, format="nexus")

Arguments

filename	a file to read tree data from
format	a format specifier; either "nexus" or "newick"

Details

The given file text is parsed and a tree object is constructed which can be used with the functions in the ape package. Annotations of the kind produced by, for example, MrBayes, are parsed and preserved in the returned object.

See parse_annotated for more information about the structure of the returned value.

Value

an object of type "phylo" or "multiPhylo", augmented with node annotations.

Author(s)

Daniel Beer [e-mail]

See Also

print_annotated, parse_annotated, write_annotated

phylotate documentation built on June 30, 2019, 1:01 a.m.