To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("eudysbiome")

In most cases, you don't need to download the package archive at all.

eudysbiome

 

   

Cartesian plot and contingency test on 16S Microbial data

Bioconductor version: Release (3.5)

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>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("eudysbiome")

Documentation

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

browseVignettes("eudysbiome")

 

PDF R Script eudysbiome User Manual
PDF   Reference Manual
Text   NEWS

Details

biocViews Software
Version 1.6.0
In Bioconductor since BioC 3.2 (R-3.2) (1.5 years)
License GPL-2
Depends R (>= 3.1.0)
Imports plyr, Rsamtools, R.utils, Biostrings
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source eudysbiome_1.6.0.tar.gz
Windows Binary eudysbiome_1.6.0.zip
Mac OS X 10.11 (El Capitan) eudysbiome_1.6.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/eudysbiome/tree/release-3.5
Package Short Url http://bioconductor.org/packages/eudysbiome/
Package Downloads Report Download Stats

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