cc_dupl function

Identify Duplicated Records

Removes or flags duplicated records based on species name and coordinates, as well as user-defined additional columns. True (specimen) duplicates or duplicates from the same species can make up the bulk of records in a biological collection database, but are undesirable for many analyses. Both can be flagged with this function, the former given enough additional information.

cc_dupl(
  x,
  lon = "decimalLongitude",
  lat = "decimalLatitude",
  species = "species",
  additions = NULL,
  value = "clean",
  verbose = TRUE
)

Arguments

• x: data.frame. Containing geographical coordinates and species names.
• lon: character string. The column with the longitude coordinates. Default = decimalLongitude .
• lat: character string. The column with the latitude coordinates. Default = decimalLatitude .
• species: a character string. The column with the species name. Default = species .
• additions: a vector of character strings. Additional columns to be included in the test for duplication. For example as below, collector name and collector number.
• value: character string. Defining the output value. See value.
• verbose: logical. If TRUE reports the name of the test and the number of records flagged.

Returns

Depending on the value argument, either a data.frame

containing the records considered correct by the test (clean ) or a logical vector (flagged ), with TRUE = test passed and FALSE = test failed/potentially problematic . Default = clean .

Examples

x <- data.frame(species = letters[1:10], 
                decimalLongitude = sample(x = 0:10, size = 100, replace = TRUE), 
                decimalLatitude = sample(x = 0:10, size = 100, replace = TRUE),
                collector = "Bonpl",
                collector.number = c(1001, 354),
                collection = rep(c("K", "WAG","FR", "P", "S"), 20))

cc_dupl(x, value = "flagged")
cc_dupl(x, additions = c("collector", "collector.number"))

See Also

Other Coordinates: cc_aohi(), cc_cap(), cc_cen(), cc_coun(), cc_equ(), cc_gbif(), cc_inst(), cc_iucn(), cc_outl(), cc_sea(), cc_urb(), cc_val(), cc_zero()