pegi3s/gbif_gis
Data from GBIF (https://www.gbif.org) GIS docker image.
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This image facilitates the usage of GBIF (Global Biodiversity Information Facility - an international network and research infrastructure funded by the world’s governments and aimed at providing anyone, anywhere, open access to data about all types of life on Earth) data to predict species distributions.
You should adapt and run the following command: docker run --rm -v /your/data/dir:/data pegi3s/gbif_gis bash -c "/opt/run <species_name>"
In this command, you should replace:
/your/data/dir
to point to the directory that contains the input files you want to analyze.<species_name>
to the actual name of the species.For instance, if the selected species is Solanum acaule*
, you should run: docker run --rm -v /your/data/dir:/data pegi3s/gbif_gis bash -c "/opt/run Solanum acaule*"
The previous command generates three files:
data.csv
: a coordinates file showing the geographic coordinates of where the species was recorded.statistics
: a results file containing some statistics on the species presence points.Rplots-crop.pdf
: a PDF file showing the presence and predicted distribution of the species (probabilities are given as color codes). The prediction model used is the Bioclim model.A folder named wc2-5
containing data on 19 abiotic variables from WorldClim will be created, if not present.
docker pull pegi3s/gbif_gis