Identify, extract and clean taxonomic children names from a taxonomy_taxon_info()
output.
Source: R/opentree_taxonomy.R
clean_taxon_info_children.Rdclean_taxon_info_children eliminates all taxa that will give
problems when trying to retrieve an induced subtree from Open Tree of Life.
Usage
clean_taxon_info_children(
taxon_info,
invalid = c("barren", "extinct", "uncultured", "major_rank_conflict", "incertae_sedis",
"unplaced", "conflict", "environmental", "not_otu", "hidden", "hybrid")
)Arguments
- taxon_info
An output of
rotl::taxonomy_taxon_info().- invalid
A character vector of "flags", i.e., characteristics that are used by Open Tree of Life Taxonomy to detect invalid taxon names.