microbiome

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see microbiome.

Microbiome Analytics

Bioconductor version: 3.13

Utilities for microbiome analysis.

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

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

Citation (from within R, enter citation("microbiome")):

To install this package, start R (version "4.1") 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.

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

browseVignettes("microbiome")

microbiome R package HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Version 1.14.0

In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)

License BSD_2_clause + file LICENSE

Depends R (>= 3.6.0), phyloseq, ggplot2

Imports dplyr, reshape2, Rtsne, scales, stats, tibble, tidyr, utils, vegan

System Requirements

Suggests BiocGenerics, BiocStyle, Cairo, knitr, rmarkdown, testthat

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Depends On Me

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

Windows Binary microbiome_1.14.0.zip

macOS 10.13 (High Sierra) microbiome_1.14.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/microbiome

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/microbiome

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Old Source Packages for BioC 3.13 Source Archive