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Traits at the taxonomic level

Source: R/GIFT_traits_tax.R
GIFT_traits_tax.Rd

Retrieve specific trait values at a high taxonomic level.

Usage

GIFT_traits_tax(
  trait_IDs = "",
  agreement = 0.66,
  bias_ref = TRUE,
  bias_deriv = TRUE,
  api = "https://gift.uni-goettingen.de/api/extended/",
  GIFT_version = "latest"
)

Arguments

trait_IDs

a character string indicating which trait you want to retrieve. Traits must belong to the available list of traits.

agreement

Percentage of resources that agree on an aggregated trait value, entries below this threshold will be omitted.

bias_ref

When FALSE, exclude entries that are only based on a resource that potentially introduces a bias (e.g. a resource only including trees).

bias_deriv

When FALSE, exclude entries that are only based on a derivation that potentially introduces a bias (e.g. all phanerophytes being woody but some life forms being ambiguous).

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.

Value

A long-format data frame with 7 columns: taxon_ID, taxon_name, trait_value, agreement, references and negative.

Details

Here is the detail of each column:

taxon_ID - Identification number of the taxon
taxon_name - Name of the taxon
agreement - Agreement score between the different sources for that trait value, only for categorical traits
references - Source of the trait values (ref_ID)
negative - Does the record indicate the absence of trait value in taxon_ID

and then one column per trait with the respective trait values

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_traits_meta()

Examples

# \donttest{
ex <- GIFT_traits_tax(trait_IDs = c("1.2.1", "1.4.1"),
bias_ref = FALSE, bias_deriv = FALSE)
#> You are asking for the latest stable version of GIFT which is 3.2.
#> 
#> Retrieving species' names.
#> Preparing the download of trait data (2 traits asked).
#> ================================================================================
#> 
#> The following traits were not available at the taxonomic level: 1.2.1 
# }