Man pages for ImperialCollegeLondon/safe_data
Interface to Data from the SAFE Project

add_locationsAdds location data to a SAFE data worksheet.
add_taxaAdd a taxonomic hierarchy to a SAFE data worksheet.
download_gazetteerDownloads the current SAFE gazetteer
download_indexDownloads the current dataset index
download_location_aliasesDownloads the current SAFE location aliases
download_safe_filesDownload SAFE dataset files
fetch_record_metadataGet and load SAFE dataset metadata
file_statusGet file status for a dataset
get_data_dirChecks the data directory is set and returns it
get_file_detailsGet file details for a record
get_indexGet the cached dataset index
get_locationsObtaining locations for a SAFE dataset.
get_taxaObtaining taxonomy for a SAFE dataset.
get_taxon_coverageRetrieve the current taxon index
get_taxon_graphGet a graph of the taxa in a dataset
igraph_to_phyloGetting a phylogeny for a dataset
insert_datasetInserts local copies of files from a dataset into a SAFE data...
load_gazetteerLoad and cache the SAFE gazetteer
load_indexLoad and cache the dataset index
load_location_aliasesLoad and cache the SAFE location aliases
load_safe_dataLoads data from a SAFE dataset.
safe_api_searchInternal SAFE dataset API search functions
safedataFinding and using data from the SAFE Project.
safedata_envIndex file memory cache
search_safeSAFE dataset search functions.
set_example_safe_dirFunctions to use an example data directory for package...
set_safe_dirSet the local SAFE data directory
show_conceptsShow SAFE dataset metadata
taxon_index_to_taxon_tableAdd taxon hierarchy to taxon metadata
validate_record_idsValidates dataset record ids from user input
verbose_messageMessage function that can be globally muted
ImperialCollegeLondon/safe_data documentation built on Nov. 19, 2020, 5:19 p.m.