metacoder (version 0.3.7)

is_stem: Test if taxa are stems

Description

Test if taxa are stems in a [taxonomy()] or [taxmap()] object. Stems are taxa from the [roots()] taxa to the first taxon with more than one subtaxon. These can usually be filtered out of the taxonomy without removing any information on how the remaining taxa are related.

obj$is_stem()
is_stem(obj)

Value

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

Arguments

obj

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

See Also

Other taxonomy data functions: classifications(), id_classifications(), is_branch(), is_internode(), is_leaf(), is_root(), 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 stems
is_stem(ex_taxmap)

# Filter out stems
filter_taxa(ex_taxmap, ! is_stem)