is_branch: Test if taxa are branches

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

Test if taxa are branches

Description

Test if taxa are branches in a [taxonomy()] or [taxmap()] object. Branches are taxa in the interior of the tree that are not [roots()], [stems()], or [leaves()].

obj$is_branch()
is_branch(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_internode(), is_leaf(), is_root(), is_stem(), map_data(), map_data_(), n_leaves(), n_leaves_1(), n_subtaxa(), n_subtaxa_1(), n_supertaxa(), n_supertaxa_1(), taxon_ids(), taxon_indexes(), taxon_names(), taxon_ranks()

Examples

# Test which taxon IDs correspond to branches
is_branch(ex_taxmap)

# Filter out branches
filter_taxa(ex_taxmap, ! is_branch)

grunwaldlab/metacoder documentation built on Feb. 22, 2024, 3:47 a.m.