Add COL-specific columns — add_col

Joins extra Catalogue of Life columns to a taxify() result by looking up taxon_id in the COL backbone. Only enriches rows where backend == "col".

Usage

add_col_info(x)

Arguments

x: A data.frame returned by taxify() with backend == "col".

Value

The same data.frame with additional columns:

notho: Hybrid type from COL: "generic", "specific", "infrageneric", or "infraspecific".
nomenclaturalCode: Nomenclatural code ("ICN", "ICZN", etc.).
nomenclaturalStatus: Nomenclatural status.
namePublishedIn: Original publication reference.
kingdom: Kingdom classification.
phylum: Phylum classification.
col_class: Class classification (renamed to avoid conflict with R's class function).
order: Order classification.
infraspecificEpithet: Infraspecific epithet.
is_extinct: Logical. Whether the species is extinct (from SpeciesProfile, if available).
is_marine: Logical. Whether the species is marine.
is_freshwater: Logical. Whether the species is freshwater.
is_terrestrial: Logical. Whether the species is terrestrial.

Examples

# Runs offline against the bundled example database.
old <- options(taxify.data_dir = taxify_example_data())

taxify("Quercus robur", backend = "col") |>
  add_col_info()

options(old)