To install this package, start R and enter:

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

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

phyloseq

This package is for version 2.11 of Bioconductor; for the stable, up-to-date release version, see phyloseq.

Handling and analysis of high-throughput phylogenetic sequence data.

Bioconductor version: 2.11

phyloseq provides a set of classes and tools to facilitate the import, storage, analysis, and graphical display of phylogenetic sequencing data.

Author: Paul J. McMurdie <mcmurdie at stanford.edu>, Susan Holmes <susan at stat.stanford.edu>

Maintainer: Paul J. McMurdie <mcmurdie at stanford.edu>

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

To install this package, start R and enter:

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

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

browseVignettes("phyloseq")

PDF	R Script	Analysis examples using phyloseq
PDF	R Script	Basic data manipulation using phyloseq
PDF		phyloseq_classes_4.pdf
PDF		Reference Manual
Text		NEWS

biocViews	Classification, Clustering, GeneticVariability, HighThroughputSequencing, MultipleComparisons, QualityControl, Software
Version	1.2.1
In Bioconductor since	BioC 2.10 (R-2.15) (4 years)
License	AGPL-3
Depends	R (>= 2.15.0), methods, ade4 (>= 1.4), ggplot2 (>= 0.9.2), picante (>= 1.3)
Imports	ape (>= 3.0), foreach (>= 1.3), igraph0 (>= 0.5), multtest(>= 2.8), plyr (>= 1.7.1), reshape (>= 0.8.4), RJSONIO (>= 0.98), scales (>= 0.2.2), vegan (>= 2.0)
LinkingTo
Suggests	genefilter, testthat
SystemRequirements
Enhances	doParallel (>= 1.0)
URL	http://joey711.github.com/phyloseq/
Depends On Me
Imports Me
Suggests Me
Build Report

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

Package Source	phyloseq_1.2.1.tar.gz
Windows Binary	phyloseq_1.2.1.zip
Mac OS X 10.6 (Snow Leopard)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/phyloseq/tree/release-2.11
Package Short Url	http://bioconductor.org/packages/phyloseq/
Package Downloads Report	Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Please read the posting guide. Post questions about Bioconductor to one of the following locations: