is_internode: Test if taxa are "internodes"

In metacoder: Tools for Parsing, Manipulating, and Graphing Taxonomic Abundance Data

Test if taxa are "internodes"

Description

Test if taxa are "internodes" in a [taxonomy()] or [taxmap()] object. An internode is any taxon with a single immediate supertaxon and a single immediate subtaxon. They can be removed from a tree without any loss of information on the relative relationship between remaining taxa.

obj$is_internode()
is_internode(obj)

Arguments

obj	The [taxonomy()] or [taxmap()] object.

Value

A 'logical' of length equal to the number of taxa.

See Also

Other taxonomy data functions: classifications(), id_classifications(), is_branch(), is_leaf(), is_root(), is_stem(), map_data_(), map_data(), n_leaves_1(), n_leaves(), n_subtaxa_1(), n_subtaxa(), n_supertaxa_1(), n_supertaxa(), taxon_ids(), taxon_indexes(), taxon_names(), taxon_ranks()

Examples

# Test for which taxon IDs correspond to internodes
is_internode(ex_taxmap)

# Filter out internodes
filter_taxa(ex_taxmap, ! is_internode)

metacoder documentation built on April 4, 2023, 9:08 a.m.