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* preparing ‘qvalue’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
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--- re-building ‘qvalue.Rnw’ using knitr

		Information on package 'qvalue'

Description:

Package:             qvalue
Type:                Package
Title:               Q-value estimation
                     for false discovery
                     rate control
Version:             2.36.0
Date:                2015-03-24
Authors@R:           as.person(c( "John
                     D. Storey
                     <jdstorey@princeton.edu>
                     [aut, cre]", "Andrew
                     J. Bass
                     <ajbass@emory.edu>
                     [aut]", "Alan Dabney
                     [aut]", "David
                     Robinson [aut]",
                     "Gregory Warnes
                     [ctb]" ))
Maintainer:          John D. Storey
                     <jstorey@princeton.edu>,
                     Andrew J. Bass
                     <ajbass@emory.edu>
biocViews:           MultipleComparisons
Description:         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.
VignetteBuilder:     knitr
Imports:             splines, ggplot2,
                     grid, reshape2
Suggests:            knitr
Depends:             R(>= 2.10)
URL:                 http://github.com/jdstorey/qvalue
License:             LGPL
RoxygenNote:         5.0.1
git_url:             https://git.bioconductor.org/packages/qvalue
git_branch:          RELEASE_3_19
git_last_commit:     2cd25e8
git_last_commit_date:
                     2024-04-30
Repository:          Bioconductor 3.19
Date/Publication:    2024-05-27
Author:              John D. Storey [aut,
                     cre], Andrew J. Bass
                     [aut], Alan Dabney
                     [aut], David
                     Robinson [aut],
                     Gregory Warnes [ctb]
Built:               R 4.4.0; ;
                     2024-05-27 22:06:47
                     UTC; unix

Index:

empPvals                Calculate p-values from a set of observed test
                        statistics and simulated null test statistics
hedenfalk               P-values and test-statistics from the Hedenfalk
                        et al. (2001) gene expression dataset
hist.qvalue             Histogram of p-values
lfdr                    Estimate local False Discovery Rate (FDR)
pi0est                  Proportion of true null p-values
plot.qvalue             Plotting function for q-value object
qvalue                  Estimate the q-values for a given set of
                        p-values
summary.qvalue          Display q-value object
write.qvalue            Write results to file

Further information is available in the
following vignettes in directory
'/private/tmp/Rtmp6Dmq3e/Rinstf9ea30e93b7f/qvalue/doc':

qvalue: qvalue Package (source, pdf)

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SUMMARY: processing the following file failed:
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