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ulrb  

Unsupervised Learning Based Definition of Microbial Rare Biosphere
View on CRAN: Click here


Download and install ulrb package within the R console
Install from CRAN:
install.packages("ulrb")

Install from Github:
library("remotes")
install_github("cran/ulrb")

Install by package version:
library("remotes")
install_version("ulrb", "0.1.8")



Attach the package and use:
library("ulrb")
Maintained by
Francisco Pascoal
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2023-11-17
Latest Update: 2025-07-07
Description:
A tool to define rare biosphere. 'ulrb' solves the problem of the definition of rarity by replacing human decision 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 score for each phylogenetic unit. For validation of this method to several kinds of molecular data and environments, please see Pascoal et al, 2023 (in preparation). Preliminary data suggest this method also works well for non-microbiome data, if there is a species abundance table.
How to cite:
Francisco Pascoal (2023). ulrb: Unsupervised Learning Based Definition of Microbial Rare Biosphere. R package version 0.1.8, https://cran.r-project.org/web/packages/ulrb. Accessed 15 Jul. 2026.
Previous versions and publish date:
(2026-07-09 06:57), 0.1.3 (2023-11-17 20:50), 0.1.5 (2024-06-18 12:40), 0.1.6 (2025-04-07 11:50)
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Complete documentation for ulrb
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