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biocLite("siggenes")

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siggenes

Multiple testing using SAM and Efron's empirical Bayes approaches

Bioconductor version: 2.14

Identification of differentially expressed genes and estimation of the False Discovery Rate (FDR) using both the Significance Analysis of Microarrays (SAM) and the Empirical Bayes Analyses of Microarrays (EBAM).

Author: Holger Schwender

Maintainer: Holger Schwender <holger.schw at gmx.de>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("siggenes")

 

PDF R Script siggenes Manual
HTML R: EBAM specific plot method
HTML R: EBAM specific print method
HTML R: EBAM specific summary method
HTML R: FindA0 specific plot method
HTML R: FindA0 specific print method
HTML R: SAM specific identify method
HTML R: SAM specific plot method
HTML R: SAM specific print method
HTML R: SAM specific summary method
PDF   Reference Manual

Details

biocViews DifferentialExpression, ExonArray, GeneExpression, Microarray, MultipleComparison, SNP, Software
Version 1.38.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier
License LGPL (>= 2)
Depends methods, Biobase, multtest, splines, graphics
Imports stats4
Suggests affy, annotate, genefilter, KernSmooth, scrime (>= 1.2.5)
System Requirements
URL
Depends On Me KCsmart, oneChannelGUI
Imports Me charm, DeSousa2013, GeneSelector, minfi
Suggests Me GeneSelector, logicFS, trio, XDE

Package Archives

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

Package Source siggenes_1.38.0.tar.gz
Windows Binary siggenes_1.38.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) siggenes_1.38.0.tgz
Mac OS X 10.9 (Mavericks) siggenes_1.38.0.tgz
Browse/checkout source (username/password: readonly)
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