obtainGBIF

Function used to obtain species observations from GBIF.

Integration of disparate datasets is needed in order to make efficient use of all available data and thereby address the issues currently threatening biodiversity.
Data integration is a powerful modeling framework which allows us to combine these datasets together into a single model, yet retain the strengths of each individual dataset.
We therefore introduce the package, 'intSDM': an R package designed to help ecologists develop a reproducible workflow of integrated species distribution models, using data both provided from the user as well as data obtained freely online.
An introduction to data integration methods is discussed in Issac, Jarzyna, Keil, Dambly, Boersch-Supan, Browning, Freeman, Golding, Guillera-Arroita, Henrys, Jarvis, Lahoz-Monfort, Pagel, Pescott, Schmucki, Simmonds and O’Hara (2020) <doi:10.1016/j.tree.2019.08.006>.

Philip Mostert

intSDM

Reproducible Integrated Species Distribution Models Across
Norway using 'INLA'

Angeline Bruls

Ragnhild {Bjørkås}

Wouter Koch

Ellen Martin

obtainGBIF function

<dl><dt>query</dt>
<dd>The scientific name of the species for which observations need to be obtained.</dd>
<dt>geometry</dt>
<dd>An <code>sf</code> object surrounding the study area where observations need to be obtained.</dd>
<dt>projection</dt>
<dd>The coordinate reference system used for the observations and geometry.</dd>
<dt>datasettype</dt>
<dd>The type of dataset that is obtained from GBIF. Can be one of: <code>PO</code>, <code>PA</code>, <code>Counts</code>.</dd>
<dt>filterDistance</dt>
<dd>Remove all points x km away from the boundary polygon.</dd>
<dt>...</dt>
<dd>Additional arguments to pass to occ_download.</dd></dl>

Arguments

obtainGBIF: Function to obtain occurrence data from GBIF. — obtainGBIF

<dl>

<dt>query</dt>
<dd>The scientific name of the species for which observations need to be obtained.</dd>


<dt>geometry</dt>
<dd>An <code>sf</code> object surrounding the study area where observations need to be obtained.</dd>


<dt>projection</dt>
<dd>The coordinate reference system used for the observations and geometry.</dd>


<dt>datasettype</dt>
<dd>The type of dataset that is obtained from GBIF. Can be one of: <code>PO</code>, <code>PA</code>, <code>Counts</code>.</dd>


<dt>filterDistance</dt>
<dd>Remove all points x km away from the boundary polygon.</dd>


<dt>...</dt>
<dd>Additional arguments to pass to occ_download.</dd>

</dl>

obtainGBIF: obtainGBIF: Function to obtain occurrence data from GBIF.

Description

Usage

Value

Arguments