Posts with the "rgbif" tag

Checklist Recipe - How we created a template to standardize species data

November 20, 2018

By:   Peter Desmet  |   Damiano Oldoni  |   Lien Reyserhove

Imagine you are a fish ecologist who compiled a list of fish species for your country. 🐟 Your list could be useful to others, so you publish it as a supplementary file to an article or in a research repository. That is fantastic, but it might be difficult for others to discover your list or combine it with other lists of species. Luckily there’s a better way to publish species lists: as a standardized checklist that can be harvested and processed by the Global Biodiversity Information Facility (GBIF).

rgbif: seven years of GBIF in R

August 22, 2018

By:   Scott Chamberlain

rgbif was seven years old yesterday! What is rgbif? rgbif gives you access to data from the Global Biodiversity Information Facility (GBIF) via their API. A samping of use cases covered in rgbif: Search for datasets Get metrics on usage of datasets Get metadata about organizations providing data to GBIF Search taxonomic names Get quick taxonomic name suggestions Search occurrences by taxonomic name/country/collector/etc. Download occurrences by taxonomic name/country/collector/etc.

Species occurrence data to CartoDB

November 4, 2013

By:   Scott Chamberlain

We have previously written about creating interactive maps on the web from R, with the interactive maps on Github. See here, here, here, and here. A different approach is to use CartoDB, a freemium service with sql interface to your data tables that provides a map to visualize data in those tables. They released an R interace to their sql API on Github here - which we can use to make an interactive map from R.

Interactive maps with polygons using R, Geojson, and Github

October 23, 2013

By:   Scott Chamberlain

Previously on this blog we have discussed making geojson maps and uploading to Github for interactive visualization with USGS BISON data, and with GBIF data, and on my own personal blog. This is done using a file format called geojson, a file format based on JSON (JavaScript Object Notation) in which you can specify geographic data along with any other metadata. In two the previous posts about geojson, I described how you could get data from the USGS BISON API using our rbison package, and from the GBIF API using the rgbif package, then make a geojson file, and send to Github.

Revisiting our USGS app

June 19, 2013

By:   Scott Chamberlain

R has a reputation of not playing nice on the web. At rOpenSci, we write R pacakages to bring data from around the web into R on your local machine - so we mostly don’t do any dev for the web. However, the United States Geological Survey (USGS) recenty held an app competition - it was a good opportunity to play with R on the web. We won best overall app as described in an earlier post on this blog.

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