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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "twilight" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'twilight: Estimation of local false discovery rate'
version: 1.88.0
doi: 10.32614/CRAN.package.twilight
abstract: '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. The package further provides
  means to filter for permutations that describe the null distribution correctly.
  Using filtered permutations, the influence of hidden confounders could be diminished.'
authors:
- family-names: Senger
  given-names: Stefanie
  email: stefanie.scheid@gmx.de
  orcid: https://orcid.org/0000-0003-4144-1040
repository: https://bioc-release.r-universe.dev
commit: 3b916754b31db125072ce023e5acf38730e29146
url: http://compdiag.molgen.mpg.de/software/twilight.shtml
date-released: '2026-04-28'
contact:
- family-names: Senger
  given-names: Stefanie
  email: stefanie.scheid@gmx.de
  orcid: https://orcid.org/0000-0003-4144-1040