A suite of methods for powerful and robust microbiome data analysis including data normalization, data simulation, community-level association testing and differential abundance analysis. It implements generalized UniFrac distances, Geometric Mean of Pairwise Ratios (GMPR) normalization, semiparametric data simulator, distance-based statistical methods, and feature-based statistical methods. The distance-based statistical methods include three extensions of PERMANOVA: (1) PERMANOVA using the Freedman-Lane permutation scheme, (2) PERMANOVA omnibus test using multiple matrices, and (3) analytical approach to approximating PERMANOVA p-value. Feature-based statistical methods include linear model-based methods for differential abundance analysis of zero-inflated high-dimensional compositional data.
Version: 1.8 Depends: R (≥ 3.5.0) Imports: Rcpp (≥ 0.12.13), vegan, ggplot2, matrixStats, Matrix, ape, parallel, stats, utils, statmod, rmutil, dirmult, MASS, ggrepel, foreach, modeest, inline, methods LinkingTo: Rcpp Suggests: ade4, knitr, markdown, ggpubr Published: 2023-09-14 DOI: 10.32614/CRAN.package.GUniFrac Author: Jun Chen, Xianyang Zhang, Lu Yang, Lujun Zhang Maintainer: Jun Chen <chen.jun2 at mayo.edu> License: GPL-3 NeedsCompilation: yes In views: Phylogenetics CRAN checks: GUniFrac results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=GUniFrac to link to this page.
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