DESeq

Package: DESeq
Version: 1.24.0
Title: Differential gene expression analysis based on the negative
binomial distribution
Author: Simon Anders, EMBL Heidelberg <sanders@fs.tum.de>
Maintainer: Simon Anders <sanders@fs.tum.de>
Imports: genefilter, geneplotter, methods, MASS, RColorBrewer
Depends: BiocGenerics (>= 0.7.5), Biobase (>= 2.21.7), locfit, lattice
Suggests: pasilla (>= 0.2.10), vsn, gplots
Description: Estimate variance-mean dependence in count data from
high-throughput sequencing assays and test for differential
expression based on a model using the negative binomial
distribution
License: GPL (>= 3)
URL: http://www-huber.embl.de/users/anders/DESeq
Collate: class_and_slots.R core.R methods.R plotDispEsts.R welcome.R
biocViews: Sequencing, ChIPSeq, RNASeq, SAGE, DifferentialExpression
NeedsCompilation: yes
Packaged: 2016-05-04 03:31:38 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'DESeq' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c pval.c -o pval.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o DESeq.so pval.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/DESeq/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'DESeq'
    finding HTML links ... done
    CountDataSet-class                      html  
    adjustScvForBias                        html  
    conditions                              html  
    counts                                  html  
    dispTable                               html  
    estimateDispersions                     html  
    estimateSizeFactors                     html  
    estimateSizeFactorsForMatrix            html  
    estimateVarianceFunctions               html  
    fitInfo                                 html  
    fitNbinomGLMs                           html  
    fitNbinomGLMsForMatrix                  html  
    getBaseMeansAndVariances                html  
    getVarianceStabilizedData               html  
    makeExampleCountDataSet                 html  
    nbinomGLMTest                           html  
    nbinomTest                              html  
    nbinomTestForMatrices                   html  
    nbkd.sf                                 html  
    newCountDataSet                         html  
    newCountDataSetFromHTSeqCount           html  
    plotDispEsts                            html  
    plotMA                                  html  
    plotPCA                                 html  
    residualsEcdfPlot                       html  
    scvPlot                                 html  
    sizeFactors                             html  
    varianceFitDiagnostics                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (DESeq)
Making 'packages.html' ... done