R: Tools for Accessing the Botanical Information and Ecology Network Database

# Tools for Accessing the Botanical Information and Ecology Network Database

## Documentation for package ‘BIEN’ version 1.2.8

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

BIEN-package | BIEN: Tools for accessing the BIEN database.
BIEN | BIEN: Tools for accessing the BIEN database.
BIEN_list_all | Extract a list of all species in the BIEN database.
BIEN_list_country | Extract species list by country
BIEN_list_county | Extract a species list by county.
BIEN_list_sf | Extract a list of species within a given sf polygon.
BIEN_list_state | Extract a species list by state/province
BIEN_metadata_citation | Generate citations for data extracted from BIEN.
BIEN_metadata_database_version | Download the current BIEN database version and release date
BIEN_metadata_list_political_names | List political divisions and associated geonames codes.
BIEN_metadata_match_data | Check for differing records between old and new dataframes.
BIEN_occurrence_box | Extract species occurrence records by a latitude/longitude bounding box.
BIEN_occurrence_country | Extract species occurrence records by country.
BIEN_occurrence_county | Extract species occurrence records by county.
BIEN_occurrence_family | Extract species occurrences by family.
BIEN_occurrence_genus | Extract occurrence data from BIEN for specified genera
BIEN_occurrence_records_per_species | Count the number of (geoValid) occurrence records for each species in BIEN
BIEN_occurrence_sf | Extract occurrence data for specified sf polygon
BIEN_occurrence_species | Extract occurrence data for specified species from BIEN
BIEN_occurrence_state | Extract species occurrence records by state.
BIEN_phylogeny_complete | Download the complete BIEN phylogenies
BIEN_phylogeny_conservative | Download the conservative BIEN phylogeny
BIEN_phylogeny_label_nodes | Label nodes on a phylogeny
BIEN_plot_country | Download plot data from specified countries.
BIEN_plot_dataset | Download plot data by dataset.
BIEN_plot_datasource | Download plot data from a given datasource.
BIEN_plot_list_datasource | List available datasources.
BIEN_plot_list_sampling_protocols | List available sampling protocols.
BIEN_plot_metadata | Download plot metadata
BIEN_plot_name | Download plot data by plot name.
BIEN_plot_sampling_protocol | Download plot data using a specified sampling protocol.
BIEN_plot_sf | Download plot data from specified sf object.
BIEN_plot_state | Download plot data from specified states/provinces.
BIEN_ranges_box | Download range maps that intersect a specified bounding box.
BIEN_ranges_genus | Download range maps for given genus.
BIEN_ranges_intersect_species | Download range maps that intersect the range of a given species.
BIEN_ranges_list | List available range maps
BIEN_ranges_load_species | Load range maps for specified species.
BIEN_ranges_sf | Download range maps that intersect a user-supplied sf object.
BIEN_ranges_shapefile_to_skinny | Extract range data and convert to smaller "skinny" format
BIEN_ranges_skinny_ranges_to_richness_raster | Build a richness raster from a skinny range file
BIEN_ranges_species | Download range maps for given species.
BIEN_ranges_species_bulk | Extract range data for large numbers of species
BIEN_stem_datasource | Extract stem data for a given datasource from BIEN
BIEN_stem_family | Extract stem data for specified families from BIEN
BIEN_stem_genus | Extract stem data for specified genera from BIEN
BIEN_stem_sampling_protocol | Download stem data using a specified sampling protocol.
BIEN_stem_species | Extract stem data for specified species from BIEN
BIEN_taxonomy_family | Extract taxonomic information for families
BIEN_taxonomy_genus | Extract taxonomic information for genera
BIEN_taxonomy_species | Extract taxonomic information for species
BIEN_trait_country | Download trait data for given country.
BIEN_trait_family | Download trait data for given families.
BIEN_trait_genus | Download trait data for given genera.
BIEN_trait_list | List all available types of trait data
BIEN_trait_mean | Calculates species mean values for a given trait, using Genus or Family level data where Species level data is lacking.
BIEN_trait_species | Download trait data for given species.
BIEN_trait_trait | Download all measurements of a specific trait(s).
BIEN_trait_traitbyfamily | Download trait data for given families and traits.
BIEN_trait_traitbygenus | Download trait data for given genus/genera and trait(s).
BIEN_trait_traitbyspecies | Download trait data for given species and trait.
BIEN_trait_traits_per_species | Count the number of trait observations for each species in the BIEN database