microbiome

DOI: 10.18129/B9.bioc.microbiome  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see microbiome.

Microbiome Analytics

Bioconductor version: 3.17

Utilities for microbiome analysis.

Author: Leo Lahti [aut, cre] , Sudarshan Shetty [aut]

Maintainer: Leo Lahti <leo.lahti at iki.fi>

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("microbiome")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("microbiome")

 

HTML	R Script	microbiome R package
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Metagenomics, Microbiome, Sequencing, Software, SystemsBiology
Version	1.22.0
In Bioconductor since	BioC 3.6 (R-3.4) (6 years)
License	BSD_2_clause + file LICENSE
Depends	R (>= 3.6.0), phyloseq, ggplot2
Imports	Biostrings, compositions, dplyr, reshape2, Rtsne, scales, stats, tibble, tidyr, utils, vegan
LinkingTo
Suggests	BiocGenerics, BiocStyle, Cairo, knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL	http://microbiome.github.io/microbiome
BugReports	https://github.com/microbiome/microbiome/issues
Depends On Me
Imports Me	MicrobiomeSurv
Suggests Me	ANCOMBC
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	microbiome_1.22.0.tar.gz
Windows Binary	microbiome_1.22.0.zip
macOS Binary (x86_64)	microbiome_1.22.0.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/microbiome
Source Repository (Developer Access)	git clone [email protected]:packages/microbiome
Bioc Package Browser	https://code.bioconductor.org/browse/microbiome/
Package Short Url	https://bioconductor.org/packages/microbiome/
Package Downloads Report	Download Stats