metagenomeSeq

Statistical analysis for sparse high-throughput sequencing

Bioconductor version: Release (2.12)

metagenomeSeq is designed to determine features (be it Operational Taxanomic Unit (OTU), species, etc.) that are differentially abundant between two or more groups of multiple samples. metagenomeSeq is designed to address the effects of both normalization and under-sampling of microbial communities on disease association detection and the testing of feature correlations.

Author: Joseph Nathaniel Paulson, Mihai Pop, Hector Corrada-Bravo

Maintainer: Joseph Paulson <jpaulson at umiacs.umd.edu>

To install this package, start R and enter:

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

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

    citation("metagenomeSeq")

Documentation

PDF	R Script	Analyzing metagenomic data with metagenomeSeq
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bioinformatics, DifferentialExpression, Metagenomics, Software, Visualization
Version	1.0.6
In Bioconductor since	BioC 2.13 (R-2.18)
License	Artistic-2.0
Depends	R(>= 3.0), Biobase, limma, matrixStats, methods, RColorBrewer, gplots
Imports
Suggests	annotate
System Requirements
URL	http://cbcb.umd.edu/software/metagenomeSeq
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source	metagenomeSeq_1.0.6.tar.gz
Windows Binary	metagenomeSeq_1.0.6.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	metagenomeSeq_1.0.6.tgz
Package Downloads Report	Download Stats

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