The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.

bean: Data Thinning of Species Occurrences in Environmental Space

A suite of tools to mitigate sampling bias in species occurrence records by thinning data in the environmental space (E-space). This process can improve the accuracy and precision of species distribution models (SDM, also known as ecological niche models, ENM). The package offers a data-driven protocol to determine thinning parameters using kernel-density bandwidth selection. Two thinning methods are provided (stochastic and deterministic) to reduce over-sampled environmental conditions and down-weight outlier observations. The name 'bean' reflects the core principle of the method: each 'pod' (a grid cell in E-space) is allowed to contain only a limited number of 'beans' (occurrence points). See Silverman (1986, ISBN:978-0-412-24620-3) and Rousseeuw and Leroy (2003, ISBN:978-0-471-48855-2) for the underlying statistical methods.

Version: 0.2.0
Depends: R (≥ 4.0)
Imports: MASS, stats, terra
Suggests: covr, knitr, rmarkdown, testthat (≥ 3.0.0), ggplot2, rgl
Published: 2026-05-30
DOI: 10.32614/CRAN.package.bean
Author: Paanwaris Paansri ORCID iD [cre, aut], Luis E. Escobar ORCID iD [aut, ctb]
Maintainer: Paanwaris Paansri <paanwaris at vt.edu>
BugReports: https://github.com/paanwaris/bean/issues
License: MIT + file LICENSE
URL: https://github.com/paanwaris/bean, https://paanwaris.github.io/bean/
NeedsCompilation: no
Materials: README, NEWS
CRAN checks: bean results

Documentation:

Reference manual: bean.html , bean.pdf
Vignettes: bean: an overview (source, R code)
1. Data preparation (source, R code)
2. Environmental thinning (source, R code)
3. Niche modeling (source, R code)

Downloads:

Package source: bean_0.2.0.tar.gz
Windows binaries: r-devel: bean_0.2.0.zip, r-release: not available, r-oldrel: bean_0.2.0.zip
macOS binaries: r-release (arm64): bean_0.2.0.tgz, r-oldrel (arm64): bean_0.2.0.tgz, r-release (x86_64): bean_0.2.0.tgz, r-oldrel (x86_64): bean_0.2.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=bean to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.