Handling and analysis of high-throughput phylogenetic sequence data.

Bioconductor version: 2.10

phyloseq is 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>, Susan Holmes <susan at>

Maintainer: Paul J. McMurdie <mcmurdie at>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



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


biocViews Classification, Clustering, GeneticVariability, HighThroughputSequencing, MultipleComparisons, QualityControl, Software
Depends R (>= 2.15.0), methods, ade4 (>= 1.4), ape (>= 2.8), ggplot2 (>= 0.9.2), picante (>= 1.3), reshape (>= 0.8.4)
Imports foreach (>= 1.3), igraph0 (>= 0.5), multtest(>= 2.8), plyr (>= 1.7), RJSONIO (>= 0.98), vegan (>= 2.0)
Suggests genefilter
System Requirements
License AGPL-3
Depends On Me
Imports Me
Suggests Me
Version 1.0.3
Since Bioconductor 2.10 (R-2.15)

Package Downloads

Package Source phyloseq_1.0.3.tar.gz
Windows Binary (32- & 64-bit)
MacOS 10.5 (Leopard) binary phyloseq_1.0.3.tgz
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