Other packages > Find by keyword >

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. Accessed 22 Dec. 2024.
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
Complete documentation for GUniFrac
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
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

LOGANTree  
Tree-Based Models for the Analysis of Log Files from Computer-Based Assessments
Enables researchers to model log-file data from computer-based assessments using machine-learning te ...
Download / Learn more Package Citations See dependency  
Maintainer: Qi Qin (view profile)
dmlalg  
Double Machine Learning Algorithms
Implementation of double machine learning (DML) algorithms in R, based on Emmenegger and Buehlmann ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
Rfast2  
A Collection of Efficient and Extremely Fast R Functions II
A collection of fast statistical and utility functions for data analysis. Functions for regression, ...
Download / Learn more Package Citations See dependency  
elect  
Estimation of Life Expectancies Using Multi-State Models
Functions to compute state-specific and marginal life expectancies. The computation is based on a fi ...
Download / Learn more Package Citations See dependency  
composits  
Compositional, Multivariate and Univariate Time Series Outlier Ensemble
A compositional multivariate and univariate time series outlier ensemble.It uses the four R packages ...
Download / Learn more Package Citations See dependency  

23,394

R Packages

201,798

Dependencies

63,416

Author Associations

23,395

Publication Badges

© Copyright 2022 - present. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA