R package to facilitate extracting and visualising eReefs model output data
An R package has been created to help R users to access and visualise eReefs marine model outputs directly from NCI servers. The package contains a few useful functions to make accessing eReefs and other CSIRO-EMS output files easier., and is available through https://github.com/open-AIMS/ereefs, with documentation available at https://open-aims.github.io/ereefs/index.html
Example use-cases include:
- Extracting time-series of simulated water quality at your monitoring stations, to use together with observational data.
- Visualising a recent event in your area as an animated map.
- Extracting simulated data along a specified transect, such as a ship track.
- Extracting a vertical profile at a specified location and time.
- Extracting a vertical slice at a specified location and time.
Installation instructions:
Copy and paste the following lines into R:
if (!requireNamespace("remotes")) {
install.packages("remotes")
}
remotes::install_github("open-aims/ereefs")The package includes:
Functions to extract time-series from eReefs netcdf files
get_ereefs_ts()
get_ereefs_depth_integrated_ts ()
get_ereefs_depth_specified_ts()
get_ereefs_bottom_ts()
Functions to produce maps or animations of eReefs model outputs
map_ereefs()
map_ereefs_movie()
plot_map()
Function to calculate optical plume class from modelled surface reflectances
Functions to extract profiles and vertical slices
get_ereefs_profile()
get_ereefs_slice()
Functions to plot profiles
plot_ereefs_profile()
plot_ereefs_zvt()