qvalue: Q-value estimation for false discovery rate control

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.

AuthorJohn D. Storey with contributions from Andrew J. Bass, Alan Dabney and David Robinson
Date of publicationNone
MaintainerJohn D. Storey <jstorey@princeton.edu>, Andrew J. Bass <ajbass@princeton.edu>
LicenseLGPL
Version2.6.0
http://github.com/jdstorey/qvalue

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Files in this package

qvalue/DESCRIPTION
qvalue/NAMESPACE
qvalue/R
qvalue/R/empPvals.R qvalue/R/hedenfalk.R qvalue/R/hist_qvalue.R qvalue/R/lfdr.R qvalue/R/multiplot.R qvalue/R/pi0est.R qvalue/R/plot_qvalue.R qvalue/R/qvalue.R qvalue/R/summary_qvalue.R qvalue/R/write_qvalue.R
qvalue/README.md
qvalue/build
qvalue/build/vignette.rds
qvalue/data
qvalue/data/datalist
qvalue/data/hedenfalk.RData
qvalue/inst
qvalue/inst/NEWS
qvalue/inst/doc
qvalue/inst/doc/qvalue.R
qvalue/inst/doc/qvalue.Rnw
qvalue/inst/doc/qvalue.pdf
qvalue/man
qvalue/man/empPvals.Rd qvalue/man/hedenfalk.Rd qvalue/man/hist.qvalue.Rd qvalue/man/lfdr.Rd qvalue/man/pi0est.Rd qvalue/man/plot.qvalue.Rd qvalue/man/qvalue.Rd qvalue/man/summary.qvalue.Rd qvalue/man/write.qvalue.Rd
qvalue/vignettes
qvalue/vignettes/qvalue.Rnw
qvalue/vignettes/qvaluerefs.bib

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