ulrb: Unsupervised Learning Based Definition of Microbial Rare Biosphere (original) (raw)

A tool to define the rare biosphere. 'ulrb' solves the problem of the definition of rarity by replacing arbitrary thresholds with an unsupervised machine learning algorithm (partitioning around medoids, or k-medoids). This algorithm works for any type of microbiome data, provided there is an abundance table. This method also works for non-microbiome data.

Version: 0.1.8
Depends: R (≥ 2.10)
Imports: cluster, dplyr, ggplot2, purrr, rlang, stats, tidyr, clusterSim, gridExtra
Suggests: knitr, rmarkdown, stringr, testthat (≥ 3.0.0), vegan
Published: 2025-07-07
DOI: 10.32614/CRAN.package.ulrb
Author: Francisco Pascoal ORCID iD [aut, cre], Paula Branco ORCID iD [aut], Luís Torgo ORCID iD [aut], Rodrigo Costa ORCID iD [aut], Catarina MagalhãesORCID iD [aut]
Maintainer: Francisco Pascoal
BugReports: https://github.com/pascoalf/ulrb/issues
License: GPL (≥ 3)
URL: https://pascoalf.github.io/ulrb/
NeedsCompilation: no
Citation: ulrb citation info
Materials: README
CRAN checks: ulrb results

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