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.
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!