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microbiome

Microbiome Analytics


Bioconductor version: Release (3.18)

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")):

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

Details

biocViews Metagenomics, Microbiome, Sequencing, Software, SystemsBiology
Version 1.24.0
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 Biostrings, compositions, dplyr, reshape2, Rtsne, scales, stats, tibble, tidyr, utils, vegan
System Requirements
URL http://microbiome.github.io/microbiome
Bug Reports https://github.com/microbiome/microbiome/issues
See More
Suggests BiocGenerics, BiocStyle, Cairo, knitr, rmarkdown, testthat
Linking To
Enhances
Depends On Me
Imports Me MicrobiomeSurv
Suggests Me ANCOMBC
Links To Me
Build Report Build Report

Package Archives

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

Source Package microbiome_1.24.0.tar.gz
Windows Binary microbiome_1.24.0.zip
macOS Binary (x86_64) microbiome_1.24.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/microbiome
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/microbiome
Bioc Package Browser https://code.bioconductor.org/browse/microbiome/
Package Short Url https://bioconductor.org/packages/microbiome/
Package Downloads Report Download Stats