This R package gathers a comprehensive set of algorithms to perform bioregionalisation analyses.
Bioregionalisation methods can be based on hierarchical clustering algorithms, non-hierarchical clustering algorithms or network algorithms.
The package can be installed with the following command line in R session:
From the CRAN
or from GitHub
# install.packages("devtools") devtools::install_github("bioRgeo/bioregion")
We wrote several vignettes that will help you using the bioregion R package. Vignettes available are the following ones:
1. Installation of the executable binary files
- 2. Matrix and network formats
- 3. Pairwise similarity/dissimilarity metrics
- 4.1 Hierarchical clustering
- 4.2 Non-hierarchical clustering
- 4.3 Network clustering
- 4.4 Microbenchmark
- 5. Visualization
Alternatively, if you prefer to view the vignettes in R, you can install the package with
build_vignettes = TRUE. But be aware that some vignettes can be slow to generate.
remotes::install_github("bioRgeo/bioregion", dependencies = TRUE, upgrade = "ask", build_vignettes = TRUE) vignette("bioregion")
An overview of all functions and data is given here.
🐛 Find a bug?
Thank you for finding it. Head over to the GitHub Issues tab and let us know about it. Alternatively, you can also send us an e-mail. We will try to get to it as soon as we can!