get_dyntaxa_records: Get taxonomic information from Dyntaxa for specified taxon IDs

Description

This function queries the SLU Artdatabanken API (Dyntaxa) to retrieve taxonomic information for the specified taxon IDs. It constructs a request with the provided taxon IDs, sends the request to the SLU Artdatabanken API, and processes the response to return taxonomic information in a data frame.

Usage

get_dyntaxa_records(taxon_ids, subscription_key = Sys.getenv("DYNTAXA_KEY"))

Value

A data frame containing taxonomic information for the specified taxon IDs. Columns include taxonId, names, category, rank, isRecommended, and parentTaxonId.

Arguments

taxon_ids

A vector of numeric taxon IDs (Dyntaxa ID) for which taxonomic information is requested.

subscription_key

A Dyntaxa API subscription key. By default, the key is read from the environment variable DYNTAXA_KEY.

You can provide the key in three ways:

Directly as a parameter: get_dyntaxa_records(238366, subscription_key = "your_key_here").
Temporarily for the session: Sys.setenv(DYNTAXA_KEY = "your_key_here"). After this, you do not need to pass subscription_key to the function.
Permanently across sessions by adding it to your ~/.Renviron file. Use usethis::edit_r_environ() to open the file, then add: DYNTAXA_KEY=your_key_here. After this, you do not need to pass subscription_key to the function.

Details

A valid Dyntaxa API subscription key is required. You can request a free key for the "Taxonomy" service from the ArtDatabanken API portal: https://api-portal.artdatabanken.se/

Note: Please review the API conditions and register for access before using the API. Data collected through the API is stored at SLU Artdatabanken. Please also note that the authors of SHARK4R are not affiliated with SLU Artdatabanken.

Examples

Run this code

if (FALSE) {
# Get taxonomic information for taxon IDs 238366 and 1010380
taxon_info <- get_dyntaxa_records(c(238366, 1010380), "your_subscription_key")
print(taxon_info)
}