GIFT_species_lookup {GIFT}

Species list in GIFT

Description

Retrieve all name matching information for one taxonomic name. All results are returned, where the name is either found in the unstandardized or taxonomically standardized names.

Usage

GIFT_species_lookup(
  genus = "",
  epithet = "",
  namesmatched = FALSE,
  api = "https://gift.uni-goettingen.de/api/extended/",
  GIFT_version = "latest"
)

Arguments

genus

character string defining the genus name to be looked for.

epithet

character string defining the specific epithet to be looked for.

namesmatched

Logical FALSE by default, set to TRUE if you want to look for the species not only in the standardized species names but also in the original species names as they came in the original resources.

api

character string defining from which API the data will be retrieved.

GIFT_version

character string defining the version of the GIFT database to use. The function retrieves by default the latest stable version. If set to beta, the most up-to-date version which is still subject to changes and edits is used.

Details

Here is what each column refers to: orig_ID - Identification number of the species before taxonomic harmonization
orig_genus - Genus before taxonomic harmonization
name_ID - Identification number of the genus before taxonomic harmonization
cf_genus- Whether the genus name is uncertain
genus- Genus before taxonomic harmonization
cf_species- Whether the species' epithet is uncertain
aff_species- Species' epithet uncertain
species_epithet- Epithet of the species before taxonomic harmonization
subtaxon- Subtaxon of the species before taxonomic harmonization
author- Author who described the species (before taxonomic harmonization)
matched- Is the species matched in the taxonomic backbone
epithetscore- Matching score for the epithet
overallscore- Overall matching score for the species
resolved- Is the species name resolved in the taxonomic backbone
synonym- Is the species name a synonym in the taxonomic backbone
matched_subtaxon- Is the subtaxon matched in the taxonomic backbone
accepted- Is the species name accepted in the taxonomic backbone
service- Service use for the taxonomic harmonization
work_ID- Identification number of the species after taxonomic harmonization
taxon_ID- Identification number of the taxonomic group
work_genus- Identification number of the genus after taxonomic harmonization
work_species_epithet- Identification number of the species epithet after taxonomic harmonization
work_species - Species name (after taxonomic harmonization)
work_author- Author who described the species (after taxonomic harmonization)

Value

A data frame with 19 columns (or 24 if namesmatched = TRUE).

References

 Denelle, P., Weigelt, P., & Kreft, H. (2023). GIFT—An R package to
 access the Global Inventory of Floras and Traits. Methods in Ecology
 and Evolution, 14, 2738-2748.
 https://doi.org/10.1111/2041-210X.14213

 Weigelt, P, König, C, Kreft, H. GIFT – A Global Inventory of Floras and
 Traits for macroecology and biogeography. J Biogeogr. 2020; 47: 16– 43.
 https://doi.org/10.1111/jbi.13623

See Also

GIFT_checklists()

Examples

ex <- GIFT_species_lookup(genus = "Fagus", epithet = "sylvatica")