taxize 0.0.3

Help topics

• capwords: Capitalize the first letter of a character string.
• classification(classification.tsn, classification.uid): Get taxonomic hierarchy for a given taxon ID.
• col_children: Search Catalogue of Life for for direct children of a particular taxon.
• col_classification: Search Catalogue of Life for taxonomic classifications.
• col_downstream: Use Catalogue of Life to get downstream taxa to a given taxonomic level.
• eol_dataobjects: Given the identifier for a data object, return all metadata about the object.
• eol_hierarchy: Retrieve all taxonomic hierarchy from given EOL taxonID.
• eol_pages: Search for pages in EOL database using a taxonconceptID.
• eol_ping: Ping EOL API to see if it's working.
• eol_search: Search for terms in EOL database.
• fresh_codes: Query species codes from
• fresh_desc: Lookup-table for fresh_traits
• fresh_traits: Query ecological parameters from
• fresh_validate: Interface to the Taxa Validation Tool (TVT) of
• get_genes_avail: Retrieve gene sequences available for a species from NCBI.
• get_seqs: Retrieve nucleotide sequences from NCBI.
• get_tsn: Get the TSN code for a search term.
• get_uid: Get the UID codes from NCBI for species names.
• gisd_isinvasive: Check invasive species status for a set of species from GISD database
• gni_details: Search for taxonomic name details using the Global Names Index.
• gni_search: Search for taxonomic names using the Global Names Index.
• gnr_datasources: Get data sources for the Global Names Resolver.
• gnr_resolve: Resolve names using Global Names Resolver.
• itis: Use any API method for the ITIS API.
• itis_acceptname: Retrieve accepted TSN (with accepted name).
• itis_downstream: Retrieve all taxa names or TSNs downstream in hierarchy from given TSN.
• itis_name: Get taxonomic names for a given taxonomic name query.
• itis_phymat_format: Get family names to make Phylomatic input object, and output input string
• itis_taxrank: Retrieve taxonomic rank name from given TSN.
• iucn_summary: Get a summary from the IUCN Red List.
• phylomatic_tree: Format tree string, submit to Phylomatic, get newick tree.
• plantminer: Search for taxonomy data from Plantminer.com
• rank_ref: Lookup-table for IDs of taxonomic ranks
• tax_name: Get taxonomic names for a given taxonomic name query.
• taxize-package(taxize): Taxnomic search and phylogeny retrieval.
• tp_acceptednames: Return all accepted names for a taxon name with a given id.
• tp_namedistributions: Return all distribution records for for a taxon name with a given id.
• tp_namereferences: Return all reference records for for a taxon name with a given id.
• tp_summary: Return summary data a taxon name with a given id.
• tp_synonyms: Return all synonyms for a taxon name with a given id.
• tpl_get: Get The Plant List csv files.
• tpl_search: A light wrapper around the taxonstand fxn to call Theplantlist.org database.
• ubio_namebank: Search uBio namebank.