eudysbiome

This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see eudysbiome.

Cartesian plot and contingency test on 16S Microbial data

Bioconductor version: 3.3

eudysbiome a package that permits to annotate the differential genera as harmful/harmless based on their ability to contribute to host diseases (as indicated in literature) or unknown based on their ambiguous genus classification. Further, the package statistically measures the eubiotic (harmless genera increase or harmful genera decrease) or dysbiotic(harmless genera decrease or harmful genera increase) impact of a given treatment or environmental change on the (gut-intestinal, GI) microbiome in comparison to the microbiome of the reference condition.

Author: Xiaoyuan Zhou, Christine Nardini

Maintainer: Xiaoyuan Zhou <zhouxiaoyuan at picb.ac.cn>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("eudysbiome")

Documentation

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

browseVignettes("eudysbiome")

Details

Package Archives

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