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lefser: R implementation of the LEfSE method for microbiome biomarker discovery

lefser is an implementation in R of the popular "LDA Effect Size (LEfSe)" method for microbiome biomarker discovery. It uses the Kruskal-Wallis test, Wilcoxon-Rank Sum test, and Linear Discriminant Analysis to find biomarkers of groups and sub-groups.

README.md Lefser finds features that have greatest differences between classes.

Vignettes Man pages API and functions Files

Package details
Author	Asya Khleborodova [cre, aut], Ludwig Geistlinger [ctb], Marcel Ramos [ctb] (<https://orcid.org/0000-0002-3242-0582>), Levi Waldron [ctb]
Bioconductor views	Classification DifferentialExpression Microbiome Sequencing Software StatisticalMethod
Maintainer	Asya Khleborodova <asya.bioconductor@gmail.com>
License	Artistic-2.0
Version	1.0.0
URL	https://github.com/waldronlab/lefser
Package repository	View on Bioconductor
Installation	Install the latest version of this package by entering the following in R: `if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("lefser")`