Man pages for ImperialCollegeLondon/safe_data
Interface to Data from the SAFE Project
| add_locations | Adds location data to a SAFE data worksheet. |
| add_taxa | Add a taxonomic hierarchy to a SAFE data worksheet. |
| download_gazetteer | Downloads the current SAFE gazetteer |
| download_index | Downloads the current dataset index |
| download_location_aliases | Downloads the current SAFE location aliases |
| download_safe_files | Download SAFE dataset files |
| fetch_record_metadata | Get and load SAFE dataset metadata |
| file_status | Get file status for a dataset |
| get_data_dir | Checks the data directory is set and returns it |
| get_file_details | Get file details for a record |
| get_index | Get the cached dataset index |
| get_locations | Obtaining locations for a SAFE dataset. |
| get_taxa | Obtaining taxonomy for a SAFE dataset. |
| get_taxon_coverage | Retrieve the current taxon index |
| get_taxon_graph | Get a graph of the taxa in a dataset |
| igraph_to_phylo | Getting a phylogeny for a dataset |
| insert_dataset | Inserts local copies of files from a dataset into a SAFE data... |
| load_gazetteer | Load and cache the SAFE gazetteer |
| load_index | Load and cache the dataset index |
| load_location_aliases | Load and cache the SAFE location aliases |
| load_safe_data | Loads data from a SAFE dataset. |
| mock_api | Simple mocking of package URLS |
| mock_api_urls | URLs handled by mock_api |
| safe_api_search | Internal SAFE dataset API search functions |
| safedata | Finding and using data from the SAFE Project. |
| safedata_env | Index file memory cache |
| safedata_network | Network resources and the safedata package. |
| search_safe | SAFE dataset search functions. |
| set_example_safedata_dir | Functions to use an example data directory for package... |
| set_safedata_dir | Set or create a safedata directory |
| set_safedata_paths | Sets the paths to the core index paths in a safedata... |
| show_concepts | Show SAFE dataset metadata |
| taxon_index_to_taxon_table | Create a table showing taxon hierarchies from taxon metadata |
| try_to_download | Attempt to download a URL resource, failing gracefully. |
| validate_record_ids | Validates dataset record ids from user input |
| verbose_message | Message function that can be globally muted |
