[New Notebook]: R example using the package voluModel in species modeling, showcasing marine life data

[laurabrenskelle]

Programming Language

R

Module/Software/IOOS data service?

OBIS

Module/Software/IOOS data service?

https://hannahlowens.github.io/voluModel/articles/a_Introduction.html

Provide a description.

Using the example in the documentation for the R package voluModel as a template, this notebook will use a subset of IOOS Marine Life/MBON data to provide an example of species distribution modeling that accounts for the depth of the occurrence. Environmental variables are pulled from the World Ocean Atlas.

[laurabrenskelle]

voluModel GitHub

[laurabrenskelle]

I've started to work on this, and I think I am going to focus on yellowtail snapper Ocyurus chrysurus for the example.

[ocefpaf]

I'm creating the conda-forge packages for volumodel and its dependencies in conda-forge/staged-recipes#26896. We will need them in the IOOS conda environment to run the notebook in the CIs here.

[laurabrenskelle]

In addition to this, it looks like some functionality is being added to rgbif to allow users to grab occurrences using a download DOI. We can showcase that in this notebook if it is ready in time. See gbif/portal-feedback#5389 (comment)

[MathewBiddle]

GBIF has a map API that might be interesting to use here. https://techdocs.gbif.org/en/openapi/v2/maps

This service is intended for use with commonly used clients such as the OpenLayers or Leaflet Javascript libraries, Google Maps, or some GIS software including QGIS. These libraries allow the GBIF layers to be visualized with other content, such as those coming from web map service (WMS) providers. It should be noted that the mapping API is not a WMS service, nor does it support WFS capabilities.

You can also return data aggregated to H3 hexes using GBIF download_sql queries. See https://github.com/jhnwllr/ISEA3H-shapefiles.

And some cloud optimized packages are demoed at https://www.gbif.org/event/7i8KywevYxWzlQMGaYdcxp/data-use-club-practical-sessions-cloud-computing-services