This package was removed from CRAN on 2011-04-26. Its history is shown below.

Reason: This package is now available from Bioconductor only, see <https://www.bioconductor.org/packages/release/bioc/html/qvalue.html>

Details below reflect version 1.26.0, its last release before removal.

qvalue

1.26.0

Q-value estimation for false discovery rate control

34packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by John D. Storey7 releasesCRAN page ↗

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.

Install

BioconductorR (source archive)Ubuntu (r2u)

BiocManager::install("qvalue")

Installs the current Bioconductor release. Requires the BiocManager package.

url <- "https://cran.r-project.org/src/contrib/Archive/qvalue/qvalue_1.26.0.tar.gz"
pkgFile <- "qvalue_1.26.0.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (1.26.0) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-qvalue

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

None

Tests · ratio 0.00

not tracked

Coverage

Documentation · exports

Dependencies · direct

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: not tracked
Documented parameters: not tracked
Return-value docs: not tracked
References docs: not tracked

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on2.2K r2u81.2K bioconda

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (4)

graphicsgrDevicesstatstcltk

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

34direct

–indirect (not tracked)

Code & Tests

Code Composition

R 787 (73%)Rd 287 (27%)

Code characteristics

Cyclomatic complexity: 2.0 median / 39 max

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

7 7 exported

Complexity

11.9 avg / 39 max

Call network

7 nodes / 6 edges

Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

Datasets

Bundled datasets · 1

Name	Class	Rows × Cols	Also ships in
hedenfalk	vector	–	–

People & History

People (3)

Other (3)

Alan Dabney

Contributor

John D. Storey

Contributor

with assistance from Gregory R. Warnes

Contributor

Package Timeline

7 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 2.14.0 released · 2011-10-31
1.26.0archived
2011-04-26 · diff ↗
This package is now available from Bioconductor only, see <https://www.bioconductor.org/packages/release/bioc/html/qvalue.html>
1.26.0
2011-04-14 · diff ↗
R
R 2.13.0 released · 2011-04-13
1.24.0
2010-10-18 · diff ↗
R
R 2.12.0 released · 2010-10-15
1.22.0
2010-04-22 · diff ↗
R
R 2.11.0 released · 2010-04-22
1.20.0
2009-11-12 · diff ↗
R
R 2.10.0 released · 2009-10-26
1.18.0
2009-04-21 · diff ↗
R
R 2.9.0 released · 2009-04-17
1.1.1
2009-02-24 · diff ↗
R
R 2.8.0 released · 2008-10-20
R
R 2.7.0 released · 2008-04-22
R
R 2.6.0 released · 2007-10-03

Show 7 earlier events

R
R 2.5.0 released · 2007-04-24
R
R 2.4.0 released · 2006-10-03
R
R 2.3.0 released · 2006-04-24
R
R 2.2.0 released · 2005-10-06
R
R 2.1.0 released · 2005-04-18
1.1
2004-10-09
R
R 2.0.0 released · 2004-10-04

Package metadata

Total releases: 7
License: LGPL
Bundled data: 23 KB / 1 file
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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