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siggenes

This is the released version of siggenes; for the devel version, see siggenes.

All versions 3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5

Multiple Testing using SAM and Efron's Empirical Bayes Approaches


Bioconductor version: Release (3.23)

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")):

Holger Schwender. siggenes: Multiple Testing using SAM and Efron's Empirical Bayes Approaches. doi:10.18129/B9.bioc.siggenes, R package version 1.86.0, https://bioconductor.org/packages/siggenes.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("siggenes")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("siggenes")
siggenes Manual PDF R Script
siggenesRnews.pdf PDF
identify.sam.html HTML
plot.ebam.html HTML
plot.finda0.html HTML
plot.sam.html HTML
print.ebam.html HTML
print.finda0.html HTML
print.sam.html HTML
summary.ebam.html HTML
summary.sam.html HTML
Reference ManualPDF

Details

biocViews DifferentialExpression, ExonArray, GeneExpression, Microarray, MultipleComparison, SNP, Software
Version1.86.0
In Bioconductor sinceBioC 1.6 (R-2.1) or earlier (> 21.5 years)
License LGPL (>= 2)
Depends Biobase, multtest, splines, methods
Imports stats4, grDevices, graphics, stats, scrime (>= 1.2.5)
System Requirements
URL
See More
Suggests affy, annotate, genefilter, KernSmooth
Linking To
Enhances
Depends On Me KCsmart
Imports Me asuri, DeSousa2013, minfi, NPFD, trio, XDE
Suggests Me logicFS
Links To Me
Build Report Build Report, r-universe

Package Archives

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

Source Package siggenes_1.86.0.tar.gz
Windows Binary (x86_64) siggenes_1.86.0.zip
macOS Binary (big-sur-x86_64) siggenes_1.86.0.tgz
macOS Binary (sonoma-arm64) siggenes_1.86.0.tgz
Source Repositorygit clone https://git.bioconductor.org/packages/siggenes
Source Repository (Developer Access)git clone git@git.bioconductor.org:packages/siggenes
Package Short Url https://bioconductor.org/packages/siggenes/
Package Downloads ReportDownload Stats