Karline Soetaert and Olivier Beauchard
Netherlands Institute for Sea Research
Btrait is an R-package that facilitates working with species density data, combined with species traits in R.
Apart from several R-functions, it also contains:
- Several species density data sets (northsea macrobenthos)
- Several trait databases (macrobenthos)
- an interactive shiny to visualise these data
The R- package is created in the framework of the EMODnet biology project.
Installation
Before installing the Btrait package, you need to first install the following R-packages and their dependencies:
- plot3D, for the simple plotting functions;
- shinydashboard, shiny, for the interactive visualisation tool;
- devtools, required for a seamless installation of the Btrait package from this github repository.
During the creation, we made use of the R-package worms, for the taxonomic relationships;
Once the above packages have been installed, type the following command in the R-console to install the Btrait package:
devtools::install_github("EMODnet/Btrait", depend=TRUE)Then, type require(Btrait) in the R-console to load the package in R.
That’s it! After this step, you should be able to use the package.
You may want to try the interactive tool. This can be triggered with:
webMWTL()Getting help
As for any other R-package, you can get extra help by entering ?Btrait in the R console.
There are two vignettes in the package, that can be triggered with vignette("Btrait") or vignette("BtraitData") in the R console.
Uninstall
To uninstall the Btrait package, locate it in the “Packages” tab in Rstudio, and click on the encircled “x” button (“Remove package”) on the right margin.
To uninstall the package manually, type the following command in the R-console (the version of the library may differ, here we assume 4.1):
-
Windows users:
remove.packages("Btrait", lib="~/R/win-library/4.1") -
Linux users:
remove.packages("Btrait", lib="~/R/x86_64-pc-linux-gnu-library/4.1")
Last updates: 2023-02-18