twilight

Estimation of local false discovery rate

In a typical microarray setting with gene expression data observed under two conditions, the local false discovery rate describes the probability that a gene is not differentially expressed between the two conditions given its corrresponding observed score or p-value level. The resulting curve of p-values versus local false discovery rate offers an insight into the twilight zone between clear differential and clear non-differential gene expression. Package TWILIGHT contains two main functions: Function twilight.pval performs a two-condition test on differences in means for a given input matrix or expression set and computes permutation based p-values. Function twilight performs a stochastic downhill search to estimate local false discovery rates and effect size distributions.

Author Stefanie Scheid
Maintainer Stefanie Scheid

Vignettes (Documentation)

Package Downloads

bcb_logo.pdf
tr_2004_01.pdf
Source twilight_1.10.0.tar.gz
Windows binary twilight_1.10.0.zip
OS X binary twilight_1.10.0.tgz

Details

biocViews
Depends R, splines, stats
Suggests golubEsets, vsn
Imports
SystemRequirements
License GPL version 2.0 or newer
URL http://compdiag.molgen.mpg.de/software/twilight.shtml
dependsOnMe OrderedList
suggestsMe