To install this package, start R and enter:

## try http:// if https:// URLs are not supported

In most cases, you don't need to download the package archive at all.



This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see qvalue.

Q-value estimation for false discovery rate control

Bioconductor version: 3.4

This package takes a list of p-values resulting from the simultaneous testing of many hypotheses and estimates their q-values and local FDR values. The q-value of a test measures the proportion of false positives incurred (called the false discovery rate) when that particular test is called significant. The local FDR measures the posterior probability the null hypothesis is true given the test's p-value. Various plots are automatically generated, allowing one to make sensible significance cut-offs. Several mathematical results have recently been shown on the conservative accuracy of the estimated q-values from this software. The software can be applied to problems in genomics, brain imaging, astrophysics, and data mining.

Author: John D. Storey with contributions from Andrew J. Bass, Alan Dabney and David Robinson

Maintainer: John D. Storey <jstorey at>, Andrew J. Bass <ajbass at>

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


To install this package, start R and enter:

## try http:// if https:// URLs are not supported


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



PDF R Script qvalue Package
PDF   Reference Manual
Text   NEWS


biocViews MultipleComparisons, Software
Version 2.6.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 12 years)
License LGPL
Depends R (>= 2.10)
Imports splines, ggplot2, grid, reshape2
Suggests knitr
Depends On Me anota, CancerMutationAnalysis, ChimpHumanBrainData, DEGseq, DrugVsDisease, metaseqR, prot2D, r3Cseq, SSPA, webbioc
Imports Me Anaquin, anota, ChAMP, clusterProfiler, derfinder, DOSE, edge, erccdashboard, IHWpaper, methylKit, msmsTests, netresponse, normr, Rnits, sights, sRAP, subSeq, synapter, trigger, webbioc
Suggests Me biobroom, LBE, maanova, PREDA, RNAinteractMAPK
Build Report  

Package Archives

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

Package Source qvalue_2.6.0.tar.gz
Windows Binary
Mac OS X 10.9 (Mavericks) qvalue_2.6.0.tgz
Subversion source (username/password: readonly)
Git source
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: