Package: OccurrenceCleaner 0.2.0

OccurrenceCleaner: Fast Quality Checks for Species Occurrence Records

An extension of 'CoordinateCleaner' (Zizka et al. 2019 <doi:10.1111/2041-210X.13152>) tailored to large-scale species occurrence data. Flags common problems in occurrence records, such as coordinates at country centroids, capitals or biodiversity institutions, zero or equal coordinates, records at sea, in the wrong country or outside the species range, duplicates, outliers within a species, and datasets with converted or gridded coordinates, with the test definitions and default buffers of 'CoordinateCleaner' apart from documented differences. It also reads the quality warnings GBIF attaches to each record, the basis of record and the establishment means, and checks records at sea or on land against the habitat of their genus from the Interim Register of Marine and Nonmarine Genera. Records are flagged and kept, and users choose afterwards which flags to filter on. Data frames of a few million records are flagged in seconds, and GBIF snapshots of billions of records are processed by reading Parquet files in chunks.

Authors:Gilles Colling [aut, cre, cph]