A High-Performance Local Taxonomic Database Interface

Documentation for package ‘taxadb’ version 0.2.1

clean_names	Clean taxonomic names
common_contains	common name starts with
common_starts_with	common name starts with
filter_by	Creates a data frame with column name given by 'by', and values given by the vector 'x', and then uses this table to do a filtering join, joining on the 'by' column to return all rows matching the 'x' values (scientificNames, taxonIDs, etc).
filter_common	Look up taxonomic information by common name
filter_id	Return a taxonomic table matching the requested ids
filter_name	Look up taxonomic information by scientific name
filter_rank	Get all members (descendants) of a given rank level
fuzzy_filter	Match names that start or contain a specified text string
get_ids	get_ids
get_names	get_names
name_contains	return all taxa in which scientific name contains the text provided
name_starts_with	scientific name starts with
taxadb_dir	Show the taxadb directory
taxa_tbl	Return a reference to a given table in the taxadb database
td_connect	Connect to the taxadb database
td_create	create a local taxonomic database
td_disconnect	Disconnect from the taxadb database.
tl_import	Import taxonomic database tables