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ulrb
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", "0.1.5")
Attach the package and use:
library("ulrb")
Maintained by
Francisco Pascoal
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.ulrb . https://github.com/pascoalf/ulrb/issues . https://pascoalf.github.io/ulrb/ . ulrb citation info . ulrb results . ulrb.pdf . Integration of ulrb in a simple microbial ecology workflow . Alternative classifications with ulrb . Tutorial to define rare biosphere with ulrb . ulrb_0.1.6.tar.gz . ulrb_0.1.6.zip . ulrb_0.1.5.zip . ulrb_0.1.6.zip . ulrb_0.1.6.tgz . ulrb_0.1.6.tgz . ulrb_0.1.6.tgz . ulrb_0.1.6.tgz . ulrb_0.1.6.tgz . ulrb_0.1.6.tgz . ulrb archive . https://CRAN.R-project.org/package=ulrb .
First Published: 2023-11-17
Latest Update: 2023-11-17
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 0.1.5, https://cran.r-project.org/web/packages/ulrb. Accessed 10 Apr. 2025.
Other packages that cited ulrb R package
View ulrb citation profile
Other R packages that ulrb depends,
imports, suggests or enhances
Complete documentation for ulrb
Functions, R codes and Examples using
the ulrb R package
Some associated functions: check_CH . check_DB . check_avgSil . define_rb . evaluate_k . evaluate_sample_k . nice . nice_env . nice_raw . nice_tidy . plot_ulrb . plot_ulrb_clustering . plot_ulrb_silhouette . prepare_tidy_data . suggest_k . ulrb-package .
Some associated R codes: check_CH.R . check_DB.R . check_avgSil.R . data.R . define_rb.R . evaluate_k.R . evaluate_sample_k.R . globals.R . plot_ulrb.R . plot_ulrb_clustering.R . plot_ulrb_silhouette.R . prepare_tidy_data.R . suggest_k.R . Full ulrb package functions and examples
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