To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("qvalue")
In most cases, you don't need to download the package archive at all.
qvalue
Q-value estimation for false discovery rate control
Bioconductor version: 3.0
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 and John D. Storey <jstorey at princeton.edu>
Maintainer: John D. Storey <jstorey at princeton.edu>
Citation (from within R,
enter citation("qvalue")):
Installation
To install this package, start R and enter:
source("http://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")
| R Script | qvalue Tutorial | |
| Reference Manual |
Details
| biocViews | MultipleComparison, Software |
| Version | 1.43.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier |
| License | LGPL |
| Depends | |
| Imports | graphics, stats |
| LinkingTo | |
| Suggests | |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | anota, CancerMutationAnalysis, ChimpHumanBrainData, DEGseq, DrugVsDisease, metaseqR, netresponse, prot2D, r3Cseq, SSPA, webbioc |
| Imports Me | anota, derfinder, DOSE, EnrichmentBrowser, erccdashboard, msmsTests, Rnits, sRAP, synapter, trigger, webbioc |
| Suggests Me | LBE, maanova, PREDA, RNAinteractMAPK |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | qvalue_1.43.0.tar.gz |
| Windows Binary | qvalue_1.43.0.zip |
| Mac OS X 10.6 (Snow Leopard) | qvalue_1.43.0.tgz |
| Mac OS X 10.9 (Mavericks) | qvalue_1.43.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!
Contact us: support.bioconductor.org
Hosting provided by Fred Hutchinson Cancer Research Center
Copyright © 2003 - 2015, Bioconductor
