GeneSelector

Stability and Aggregation of ranked gene lists

Bioconductor version: 2.8

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>

To install this package, start R and enter:

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

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

    citation("GeneSelector")

Documentation

PDF R Script GeneSelector.pdf
PDF   Reference Manual

Details

biocViews Statistics, DifferentialExpression
Depends R (>= 2.5.1), methods, stats, Biobase
Imports multtest, siggenes, samr, limma
Suggests multtest, siggenes, samr, limma
System Requirements
License GPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me
Version 2.2.0
Since Bioconductor 2.2 (R-2.7)

Package Downloads

Package Source GeneSelector_2.2.0.tar.gz
Windows Binary GeneSelector_2.2.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary GeneSelector_2.2.0.tgz
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