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GUniFrac  

Generalized UniFrac Distances, Distance-Based Multivariate Methods and Feature-Based Univariate Methods for Microbiome Data Analysis
View on CRAN: Click here


Download and install GUniFrac package within the R console
Install from CRAN:
install.packages("GUniFrac")

Install from Github:
library("remotes")
install_github("cran/GUniFrac")

Install by package version:
library("remotes")
install_version("GUniFrac", "1.8")



Attach the package and use:
library("GUniFrac")
Maintained by
Jun Chen
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2012-04-28
Latest Update: 2023-09-14
Description:
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.
How to cite:
Jun Chen (2012). GUniFrac: Generalized UniFrac Distances, Distance-Based Multivariate Methods and Feature-Based Univariate Methods for Microbiome Data Analysis. R package version 1.8, https://cran.r-project.org/web/packages/GUniFrac
Previous versions and publish date:
1.0 (2012-04-28 18:47), 1.1 (2018-02-13 00:20), 1.2 (2021-05-03 16:20), 1.3 (2021-08-18 23:50), 1.4 (2021-11-10 07:20), 1.5 (2022-04-06 00:42), 1.6 (2022-05-17 23:50), 1.7 (2022-10-23 23:27)
Other packages that cited GUniFrac R package
View GUniFrac citation profile
Other R packages that GUniFrac depends, imports, suggests or enhances
Functions, R codes and Examples using the GUniFrac R package
Some associated functions: GMPR . GUniFrac . PermanovaG . PermanovaG2 . Rarefy . SimulateMSeq . SimulateMSeqC . ZicoSeq . ZicoSeq.plot . adonis3 . dICC.SE.asympt . dICC.SE.bt . dICC . dmanova . stool.otu.tab . throat.meta . throat.otu.tab . throat.tree . vaginal.otu.tab . 
Some associated R codes: GMPR.R . GUniFrac.R . RcppExports.R . SimMSeq.R . ZicoSeq.R . dICC.R .  Full GUniFrac package functions and examples
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