mbOmic

This package is for version 3.16 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see mbOmic.

Integrative analysis of the microbiome and metabolome

DOI: 10.18129/B9.bioc.mbOmic

Bioconductor version: 3.16

The mbOmic package contains a set of analysis functions for microbiomics and metabolomics data, designed to analyze the inter-omic correlation between microbiology and metabolites. Integrative analysis of the microbiome and metabolome is the aim of mbOmic. Additionally, the identification of enterotype using the gut microbiota abundance is preliminaryimplemented.

Author: Congcong Gong [aut, cre]

Maintainer: Congcong Gong <congconggong33 at gmail.com>

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

Installation

To install this package, start R (version "4.2") and enter:


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

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("mbOmic")

enterotyping HTML R Script

Integrative analysis of metabolome and microbiome HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Metabolomics, Microbiome, Network, Software

Version 1.2.0

In Bioconductor since BioC 3.15 (R-4.2) (2 years)

License Artistic-2.0

Depends R (>= 4.1.0)

Imports parallel, doParallel, psych, WGCNA, data.table, igraph, visNetwork, cluster, clusterSim, methods, graphics, stats

System Requirements

URL https://github.com/gongcongcong/mbOmic

Bug Reports https://github.com/gongcongcong/mbOmic/issues

Suggests testthat (>= 3.0.0), knitr, rmarkdown, devtools, impute

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me

Links To Me

Build Report Build Report

Package Archives

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

Source Package mbOmic_1.2.0.tar.gz

Windows Binary mbOmic_1.2.0.zip (64-bit only)

macOS Binary (x86_64) mbOmic_1.2.0.tgz

macOS Binary (arm64) mbOmic_1.2.0.tgz

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

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

Bioc Package Browser https://code.bioconductor.org/browse/mbOmic/

Package Short Url https://bioconductor.org/packages/mbOmic/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.16 Source Archive