an R package to biotype a community
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README.md

R package to biotype a community

Package: biotyper

Type: Package

Title: biotyper: an R package to biotype a community

Version: 0.1.2

Depends: R (>= 1.8.0), ade4, fpc, clusterSim

Date: 2015-10-30

Author: Julien Tap, Daniel R. Mende

Maintainer: Julien Tap jtap@jouy.inra.fr, Daniel R. Mende mende@embl.de

Description: This package provide numerous functions for biotyping your community dataset based on clustering and classification techniques.

License: GPL 2

LazyLoad: yes

Short story : package developped for the enterotype paper (Arumugam et al., Nature, 2010) at EMBL. I am still maintain it at Danone Nutricia Research hoping that it could be useful for other users too. more information with the enterotype tutorial : http://enterotype.embl.de/. A more recent method to cluster enterotypes using reference-based assignments can be found here http://enterotypes.org/

Install : you can install the BiotypeR package from GitHub using devtools package.

require(devtools)
install_github("tapj/BiotypeR")
library(BiotypeR)
example(BiotypeR)