taxize-package |
Taxnomic search and phylogeny retrieval. |
capwords |
Capitalize the first letter of a character string. |
classification |
Get taxonomic hierarchy for a given taxon ID. |
classification.tsn |
Get taxonomic hierarchy for a given taxon ID. |
classification.uid |
Get taxonomic hierarchy for a given taxon ID. |
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. |
getkey |
Function to get API key. |
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. |
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 function in ritis, searching by TSN or taxonomic name. |
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 to Phylomatic for use in the function phylomatic_tree. |
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 |
taxize |
Taxnomic search and phylogeny retrieval. |
tpl_get |
Get The Plant List csv files. |
tpl_search |
A light wrapper around the taxonstand fxn to call Theplantlist.org database. |
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. |
ubio_namebank |
Search uBio namebank. |