TaxaNorm: 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) <doi:10.1101/2023.10.31.563648>.

Version: 2.4
Depends: R (≥ 4.0.0), microbiome
Imports: phyloseq, stats, S4Vectors, BiocGenerics, vegan, methods, MASS, future, future.apply, matrixStats, pscl, parallelly, ggplot2, utils
Suggests: rmarkdown, knitr
Published: 2023-12-12
Author: Ziyue Wang [aut], Dillon Lloyd [aut, cre, cph], Shanshan Zhao [aut, ctb], Alison Motsinger-Reif [aut, ctb]
Maintainer: Dillon Lloyd <dtlloyd at ncsu.edu>
BugReports: https://github.com/wangziyue57/TaxaNorm/issues
License: GPL-3
URL: https://github.com/wangziyue57/TaxaNorm
NeedsCompilation: no
Materials: README NEWS
CRAN checks: TaxaNorm results

Documentation:

Reference manual: TaxaNorm.pdf
Vignettes: TaxNorm Introduction

Downloads:

Package source: TaxaNorm_2.4.tar.gz
Windows binaries: r-prerel: TaxaNorm_2.4.zip, r-release: TaxaNorm_2.4.zip, r-oldrel: TaxaNorm_2.4.zip
macOS binaries: r-prerel (arm64): TaxaNorm_2.4.tgz, r-release (arm64): not available, r-oldrel (arm64): not available, r-prerel (x86_64): TaxaNorm_2.4.tgz, r-release (x86_64): not available

Linking:

Please use the canonical form https://CRAN.R-project.org/package=TaxaNorm to link to this page.