GeneSelector

This package is for version 3.7 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see GeneSelector.

Stability and Aggregation of ranked gene lists


Bioconductor version: 3.7

The term 'GeneSelector' refers to a filter selecting those genes which are consistently identified as differentially expressed using various statistical procedures. 'Selected' genes are those present at the top of the list in various ranking methods (currently 14). In addition, the stability of the findings can be taken into account in the final ranking by examining perturbed versions of the original data set, e.g. by leaving samples, swapping class labels, generating bootstrap replicates or adding noise. Given multiple ranked lists, one can use aggregation methods in order to find a synthesis.

Author: Martin Slawski <ms at cs.uni-sb.de>, Anne-Laure Boulesteix <boulesteix at ibe.med.uni-muenchen.de>.

Maintainer: Martin Slawski <ms at cs.uni-sb.de>

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

Installation

To install this package, start R (version "3.5") and enter:


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

BiocManager::install("GeneSelector")

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("GeneSelector")
GeneSelector.pdf PDF R Script
Reference Manual PDF

Details

biocViews DifferentialExpression, Software, StatisticalMethod
Version 2.30.0
In Bioconductor since BioC 2.2 (R-2.7) (16 years)
License GPL (>= 2)
Depends R (>= 2.5.1), methods, stats, Biobase
Imports multtest, siggenes, samr, limma
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Suggests multtest, siggenes, samr, limma
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Package Archives

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

Source Package GeneSelector_2.30.0.tar.gz
Windows Binary GeneSelector_2.30.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) GeneSelector_2.30.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GeneSelector
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GeneSelector
Package Short Url https://bioconductor.org/packages/GeneSelector/
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Old Source Packages for BioC 3.7 Source Archive