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Competitive Balances for Taxonomic Enrichment Analysis in R

Bioconductor version: Release (3.19)

This package implements CBEA, a method to perform set-based analysis for microbiome relative abundance data. This approach constructs a competitive balance between taxa within the set and remainder taxa per sample. More details can be found in the Nguyen et al. 2021+ manuscript. Additionally, this package adds support functions to help users perform taxa-set enrichment analyses using existing gene set analysis methods. In the future we hope to also provide curated knowledge driven taxa sets.

Author: Quang Nguyen [aut, cre]

Maintainer: Quang Nguyen <quangpmnguyen at>

Citation (from within R, enter citation("CBEA")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Basic Usage HTML R Script
Reference Manual PDF


biocViews DataImport, GeneSetEnrichment, Metagenomics, Microbiome, Software
Version 1.4.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License MIT + file LICENSE
Depends R (>= 4.2.0)
Imports BiocParallel, BiocSet, dplyr, lmom, fitdistrplus, magrittr, methods, mixtools, Rcpp (>= 1.0.7), stats, SummarizedExperiment, tibble, TreeSummarizedExperiment, tidyr, glue, generics, rlang, goftest
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Suggests phyloseq, BiocStyle, covr, knitr, RefManageR, rmarkdown, sessioninfo, testthat (>= 3.0.0), tidyverse, roxygen2, mia, purrr
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Follow Installation instructions to use this package in your R session.

Source Package CBEA_1.4.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) CBEA_1.4.0.tgz
macOS Binary (arm64) CBEA_1.4.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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