Feature-Wise Normalization for Microbiome Sequencing Data

A novel feature-wise normalization method based on a zero-inflated negative binomial model. This method assumes that the effects of sequencing depth vary for each taxon on their mean and also incorporates a rational link of zero probability and taxon dispersion as a function of sequencing depth. Ziyue Wang, Dillon Lloyd, Shanshan Zhao, Alison Motsinger-Reif (2023) .

TaxaNorm

TaxNorm is the R package for a novel feature-wise normalization method for microbiome data based on zero-inflated negative binomial model. This method assumes that the effects of sequencing depth vary for each taxon on their mean and incorporates a rational link of zero probability and taxon dispersion as a function of sequencing depth to better capture the microbiome data nature.

Installation

Current stable release:

install.packages("TaxaNorm")

Build from GitHub:

if (!require(remotes)) install.packages("remotes")
remotes::install_github("wangziyue57/TaxaNorm", 
                        dependencies = TRUE, 
                        build_vignettes = TRUE)

Citation