Package: rtaxref 0.1.0

rtaxref: An R client for TaxRef the French Taxonomical Database

Provides an R client to the TaxRef API <https://taxref.mnhn.fr/taxref-web/api/doc>, the French Taxonomical Reference Database which indexes names of species with unique identifiers as well as conservation statuses, biological interactions and taxonomic relationships.

Authors:Matthias Grenié [aut, cre], Hugo Gruson [aut]

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rtaxref.pdf |rtaxref.html✨
rtaxref/json (API)

# Install 'rtaxref' in R:
install.packages('rtaxref', repos = c('https://rekyt.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/rekyt/rtaxref/issues

On CRAN:

apiapi-clientapi-wrapperbiodiversitytaxonomy

3.30 score 4 stars 5 scripts 36 exports 19 dependencies

Last updated 2 years agofrom:bf897635dd. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 08 2024
R-4.5-winOKNov 08 2024
R-4.5-linuxOKNov 08 2024
R-4.4-winOKNov 08 2024
R-4.4-macOKNov 08 2024
R-4.3-winOKNov 08 2024
R-4.3-macOKNov 08 2024

Exports:rt_biogeo_statusrt_external_dbrt_habitatsrt_interactions_find_typert_interactions_opgrouprt_interactions_searchrt_interactions_typert_languagesrt_operational_groupsrt_source_usesrt_sources_find_termrt_sources_idrt_sources_matchrt_status_find_typert_status_opgrouprt_status_searchrt_status_typert_taxa_autocompletert_taxa_childrenrt_taxa_externalidsrt_taxa_factsheetrt_taxa_from_externalidsrt_taxa_fuzzymatchrt_taxa_idrt_taxa_interactionsrt_taxa_mediart_taxa_parentrt_taxa_searchrt_taxa_sourcesrt_taxa_statusrt_taxa_synonymsrt_taxa_taxrefhistoryrt_taxa_vernacularrt_taxo_ranksrt_taxref_versionsrt_vernacular_groups

Dependencies:askpassclicurlfansigluehttrjsonlitelifecyclemagrittrmimeopensslpillarpkgconfigR6rlangsystibbleutf8vctrs

Introduction to rtaxref

Rendered fromrtaxref.Rmdusingknitr::rmarkdownon Nov 08 2024.

Last update: 2022-06-04
Started: 2022-06-04

Readme and manuals

Help Manual

Help pageTopics
Retrieve biogeographic statuses used in TAXREFrt_biogeo_status
Retrieve external DBs referenced in TAXREFrt_external_db
Retrieve habitats used in TAXREFrt_habitats
Retrieve the status of all Taxa according to a Status Typert_interactions_find_type
Retrieve the interactions of all Taxa in an Operational Grouprt_interactions_opgroup
Search Interactions based on a list of criteriart_interactions_search
Retrieve Interactions Types used in TAXREFrt_interactions_type
Retrieve the languages used in TAXREFrt_languages
Retrieve operational groups used in TAXREFrt_operational_groups
Retrieve the list of source uses in TAXREFrt_source_uses
Search a source from a termrt_sources_find_term
Retrieve a source of taxonomic information using its idrt_sources_id
Search a source from a citation by fuzzy matchingrt_sources_match
Retrieve the status of all Taxa according to a Status Typert_status_find_type
Retrieve the status of all Taxa in an Operational Grouprt_status_opgroup
Search statuses based on a list of criteriart_status_search
Retrieve Status Types Used in TAXREFrt_status_type
Retrieve Taxon ID from partially matching its Namert_taxa_autocomplete
Retrieve a taxon childrenrt_taxa_children
Retrieve IDs of the taxon in external databasesrt_taxa_externalids
Get factsheet for taxart_taxa_factsheet
Retrieve Taxon using the ids from external databasesrt_taxa_from_externalids
Find taxa by fuzzy matching their scientific Namert_taxa_fuzzymatch
Retrieve a taxon information using its idrt_taxa_id
Retrieve Interactions of taxon with other taxart_taxa_interactions
Retrieve Media (photos & others) Associated with a Taxonrt_taxa_media
Retrieve classification above the taxonrt_taxa_parent
Search for a taxon informationrt_taxa_search
Retrieve Sources Associated with a Taxonrt_taxa_sources
Retrieve Taxon Conservation Statusrt_taxa_status
Retrieve Synonyms associated with a Taxonrt_taxa_synonyms
Retrieve history of a taxon through TAXREF versionsrt_taxa_taxrefhistory
Retrieve VernacularNames associated with a Taxonrt_taxa_vernacular
Retrieve taxonomic ranks in TAXREFrt_taxo_ranks
Retrieve the list of existing TAXREF versionsrt_taxref_versions
Retrieve the list of vernacular groups in TAXREFrt_vernacular_groups