Retrieve details about a taxon, an anatomical structure, a gene, or a phenotypic quality.

pk_taxon_detail(term, verbose = FALSE)

pk_anatomical_detail(term, verbose = FALSE)

pk_phenotype_detail(term, verbose = FALSE)

pk_gene_detail(term, taxon = NA, verbose = FALSE)



character, the query term, either as name or IRI. Names are looked up against taxonomies, anatomy ontologies, and PATO for pk_taxon_detail, pk_anatomical_detail, and pk_phenotype_detail, respectively.

For pk_taxon_detail this can also be a list (or vector) of terms (taxa).


logical, whether informative messages should be printed. The default is FALSE.


character, the NCBI taxon name or corresponding NCBITaxon ontology IRI for which to match the gene name.


A data.frame, with at least columns "id" and "label".

For pk_taxon_detail, additional columns are "extinct" (logical), "", "rank.label", and where available "common_name". The rows corresponding to taxon names that failed to be resolved to IRIs will be NA.

For pk_anatomical_detail and pk_phenotype_detail, the additional column is "definition".

For pk_gene_detail, the additional columns are "" and "taxon.label" for the corresponding NCBI Taxonomy ID and name, and "matchType" ('exact' or 'partial').


#> id label extinct #> 1 Coralliozetus FALSE #> rank.label common_name #> 1 genus <NA>
pk_anatomical_detail("basihyal bone")
#> label isDefinedBy #> 1 basihyal bone #> definition #> 1 Replacement bone that is median and is the anterior-most bone of the ventral hyoid arch. #> id #> 1
#> id label matchType #> 1 socs5 exact #> 2 Socs5 exact #> 3 socs5a partial #> 4 socs5b partial #> taxon.label #> 1 Xenopus #> 2 Mus musculus #> 3 Danio rerio #> 4 Danio rerio