Interactive maps with polygons using R, Geojson, and Github

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. In both examples, the data were points. What about polygons? This is a relatively common use case in which an area is defined on a map instead of points - and polygons are supported in geojson. How do we do this with the R to geojson to Github workflow?

Using our package rgbif you can get a interactive map with polygons up on Github in just four lines of code! Of course creating a .shp file will take more than four lines of code.

Install rgbif

You’ll need devtools packge to install rgbif from Github.

install.packages("devtools")
library(devtools)
install_github("rgbif", "ropensci", ref="newapi")

Load rgbif

library(rgbif)

Make the map

There are various ways of getting a .shp file. I won’t go over those here, so we’ll just use a .shp file from the web. I downloaded a zip file for Abies magnifica for its range map from the book Atlas of United States Trees from this site - here is the link for the zip file: https://esp.cr.usgs.gov/data/little/abiemagn.zip. I unzipped the file locally on my machine, and here we just use the abiemagn.shp file within that zip file.

The first line of code in the next code block uses the function togeojson to make a geojson file, which is written locally on your machine (a message tells you where it is located, but you can specify where you want it to go with the destpath parameter). Note that the input argument to togeojson goes to the directory for abiemagn/abiemagn.shp, but for this to work you need the associated other two files, in this case: abiemagn.dbf and abiemagn.shx.

The second line of code uses the gist function to upload your .geojson file as a gist on Github.

file <- "~/abiemagn/abiemagn.shp"
togeojson(input = file, method = "local", outfilename = "abiesmagmap")

## Success! File is at /Users/scottmac2/abiesmagmap.geojson

gist("~/abiesmagmap.geojson", description = "Abies magnifica polygons")

## Your gist has been published
## View gist at https://gist.github.com/sckott/9198370

That’s it! The map is immediately available on the web, see here for the one we just created. And you can embed the map too, like here: