Nordic Oikos 2018 – GBIF data with R

Scientific reuse of openly published biodiversity information: Programmatic access to and analysis of primary biodiversity information using R. Nordic Oikos 2018, pre-conference R workshop, 18^th and 19^th February 2018 in Trondheim, Norway.

Session 3: Download occurrence data from GBIF in R

This session presents programmatic access to GBIF data using R with focus on the rOpenSci rgbif-package. We will also explore the taxize R-package for handling taxon names.

• Introduction to rgbif (tutorial)
• Filtering using data terms (and spatial geometry)
• Taxon names / resolving (using taxize). What is “nubkey”?
• Asynchron download (see also GBIF API)

Workshop training materials for session 3

• Programmatic access to GBIF data in R with rgbif, (html)
• Asynchron download
• Filtering using data terms and spatial geometry (to be added)
• Example data quality tests, (html)
• Taxon names information (to be added)

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