To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("qvalue")

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

qvalue

This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see qvalue.

Q-value estimation for false discovery rate control

Bioconductor version: 2.8

This package takes a list of p-values resulting from the simultaneous testing of many hypotheses and estimates their q-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. 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: Alan Dabney <adabney at u.washington.edu> and John D. Storey <jstorey at u.washington.edu>, with assistance from Gregory R. Warnes <gregory_r_warnes at groton.pfizer.com>

Maintainer: John D. Storey <jstorey at u.washington.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("qvalue")

Documentation

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

browseVignettes("qvalue")

PDF		manual.pdf
PDF		pHist.pdf
PDF		qHist.pdf
PDF		qPlots.pdf
PDF		qvalue-002.pdf
PDF		qvalue-004.pdf
PDF		qvalue-006.pdf
PDF		qvalue.pdf
PDF		Reference Manual

Details

biocViews	MultipleComparisons, Software
Version	1.26.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier (> 11 years)
License	LGPL
Depends
Imports	graphics, grDevices, stats, tcltk
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me	anota, DEGseq, gaia, PatientGeneSets, SSPA, webbioc
Imports Me	anota, clusterProfiler, RNAinteract, webbioc
Suggests Me	LBE, maanova
Build Report

Package Archives

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

Package Source	qvalue_1.26.0.tar.gz
Windows Binary	qvalue_1.26.0.zip
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/qvalue/tree/release-2.8
Package Short Url	http://bioconductor.org/packages/qvalue/
Package Downloads Report	Download Stats