speciesList: Prepare List of Species Names for Query

In LimaRAF/TreeCo: An R Package to Manage TreeCo Database

Prepare List of Species Names for Query

Description

From a list of names already cleaned and validated, the function prepare all fields necessary to obtain species trait data from the TreeCo database.

Usage

speciesList(
  x = NULL,
  tax.name = "suggestedName",
  spp.name = "species.correct",
  fam.name = "family",
  genus.name = "genus",
  tax.rank = "taxon.rank",
  tax.status = "scientificNameStatus",
  out.names = c("Name_submitted", "family", "genus", "species.correct", "taxon.rank")
)

Arguments

x	a data frame with, at least, the cleaned and validated taxa names
tax.name	name of the column containing the cleaned and validate taxa names. Default to 'suggestedName'
spp.name	name of the column containing the original species name, used to obtain the cleaned and validated names. Default to 'species.correct'.
fam.name	name of the column containing the taxon family. Default to 'family'.
genus.name	name of the column containing the taxon genus. Default to 'genus'.
tax.rank	name of the column containing the taxon rank. Default to 'taxon.rank'.
tax.status	name of the column containing the taxon status. Default to 'scientificNameStatus'.
out.names	vector of column names in the output table for 'tax.name', 'fam.name', 'genus.name', 'spp.name' and 'tax.rank', in this specific order.

Details

The function ...

Value

a data frame with ...

Author(s)

Renato A. F. de Lima

See Also

traitCover

LimaRAF/TreeCo documentation built on Sept. 25, 2024, 12:41 p.m.