GUniFrac: Generalized UniFrac Distances, Distance-Based Multivariate Methods and Feature-Based Univariate Methods for Microbiome Data Analysis

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.

Package details

AuthorJun Chen, Xianyang Zhang, Lu Yang
MaintainerJun Chen <chen.jun2@mayo.edu>
LicenseGPL-3
Version1.6
Package repositoryView on CRAN
Installation Install the latest version of this package by entering the following in R:
install.packages("GUniFrac")

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GUniFrac documentation built on May 18, 2022, 1:06 a.m.