Function reference • BeeBDC

All functions
`BeeBDCQuery()`	Query the bee taxonomy and country checklist
`ColTypeR()`	Sets up column names and types
`GBIFissues()`	Flags records with GBIF issues
`harmoniseR()`	Harmonise taxonomy of bee occurrence data
`PaigeIntegrater()`	Integrate manually-cleaned data from Paige Chesshire
`USGS_formatter()`	Find, import, and format USGS data to Darwin Core
`atlasDownloader()`	Download occurrence data from the Atlas of Living Australia (ALA)
`bees3sp`	A flagged dataset of 105 random bee occurrence records from the three species
`beesChecklist()`	Download a country-level checklist of bees from Discover Life
`beesFlagged`	A flagged dataset of 100 random bee occurrence records
`beesRaw`	A dataset of 100 random bee occurrence records without flags or filters applied
`beesTaxonomy()`	Download a nearly complete taxonomy of bees globally
`chordDiagramR()`	Build a chord diagram of duplicate occurrence links
`continentOutlieRs()`	Flag continent-level outliers with a provided checklist.
`coordUncerFlagR()`	Flag occurrences with an uncertainty threshold
`countryNameCleanR()`	Fix country name issues using a user-input list
`countryOutlieRs()`	Flag country-level outliers with a provided checklist.
`dataProvTables()`	Build a table of data providers for bee occurrence records
`dataSaver()`	Simple function to save occurrence AND EML data as a list
`dateFindR()`	Find dates in other columns
`diagonAlley()`	Find fill-down errors
`dirMaker()`	Set up global directory paths and create folders
`dupePlotR()`	Create a compound bar graph of duplicate data sources
`dupeSummary()`	Identifies duplicate occurrence records
`fileFinder()`	Finds files within a directory
`flagAbsent()`	Flags occurrences that are marked as absent
`flagLicense()`	Flag license protected records
`flagRecorder()`	Loads, appends, and saves occurrence flag data
`flagSummaryTable()`	Build a per-species summary for each and all flags
`formattedCombiner()`	Combine the formatted USGS data with the main dataset
`idMatchR()`	Attempt to match database_ids from a prior run
`importOccurrences()`	Imports the most-recent repoMerge data
`interactiveMapR()`	Creates interactive html maps for species
`jbd_CfC_chunker()`	Get country names from coordinates
`jbd_Ctrans_chunker()`	Wraps jbd_coordinates_transposed to identify and fix transposed occurrences
`jbd_coordCountryInconsistent()`	Flags coordinates that are inconsistent with the stated country name
`jbd_coordinates_precision()`	Flags coordinates for imprecision
`jbd_coordinates_transposed()`	Identify transposed geographic coordinates
`jbd_create_figures()`	Create figures reporting the results of the bdc/BeeBDC packages
`manualOutlierFindeR()`	Finds outliers, and their duplicates, as determined by experts
`plotFlagSummary()`	Generate a plot summarising flagged data
`readr_BeeBDC()` `readr_EPEL()` `readr_ASP()` `readr_BMin()` `readr_BMont()` `readr_Ecd()` `readr_Gai()` `readr_CAES()` `readr_KP()` `readr_EcoS()` `readr_GeoL()` `readr_EaCO()` `readr_MABC()` `readr_Col()` `readr_FSCA()` `readr_SMC()` `readr_Bal()` `readr_Lic()` `readr_Arm()` `readr_Dor()` `readr_MEPB()` `readr_BBD()` `readr_MPUJ()` `readr_STRI()` `readr_PALA()` `readr_JoLa()` `readr_VicWam()`	A wrapper for all of the data readr_functions
`repoFinder()`	Find GBIF, ALA, iDigBio, and SCAN files in a directory
`repoMerge()`	Import occurrences from GBIF, ALA, iDigBio, and SCAN downloads
`summaryFun()`	Create or update the .summary flag column
`summaryMaps()`	Create country-level summary maps of species and occurrence numbers
`taxadbToBeeBDC()`	Import and convert taxadb taxonomies to BeeBDC format
`testChecklist`	An example of the beesChecklist file
`testTaxonomy`	An example of the beesTaxonomy file

Reference

All functions