phyloseq

Handling and analysis of high-throughput phylogenetic sequence data.

Bioconductor version: Release (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>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("phyloseq")

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

    citation("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)
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)
Suggests	genefilter, testthat
System Requirements
URL	http://joey711.github.com/phyloseq/
Depends On Me
Imports Me
Suggests Me

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