JunctionSeq

Package: JunctionSeq
Version: 1.2.4
Title: JunctionSeq: A Utility for Detection of Differential Exon and
Splice-Junction Usage in RNA-Seq data
Authors@R: c(person("Stephen", "Hartley", role = c("aut", "cre"),
email = "JunctionSeq-contact@list.nih.gov", comment = "PhD"),
person("Simon","Anders", role=c("cph"),email="sanders@fs.tum.de"),
person("Alejandro","Reyes", role=c("cph"),email="alejandro.reyes@embl.de"))
Depends: R (>= 3.3), methods, SummarizedExperiment (>= 0.2.0)
Imports: DESeq2 (>= 1.10.0), statmod, Hmisc, plotrix, stringr, Biobase
(>= 2.30.0), locfit, BiocGenerics (>= 0.7.5), BiocParallel,
genefilter, geneplotter, S4Vectors, IRanges, GenomicRanges
Suggests: MASS, knitr, JctSeqData, BiocStyle
Enhances: Cairo, pryr
Description: A Utility for Detection and Visualization of Differential Exon or Splice-Junction Usage in RNA-Seq data.
License: file LICENSE
VignetteBuilder: knitr
NeedsCompilation: no
biocViews: Sequencing, RNASeq, DifferentialExpression
URL: http://hartleys.github.io/JunctionSeq/index.html
BugReports: https://github.com/hartleys/JunctionSeq/issues
Packaged: 2016-05-26 05:55:05 UTC; biocbuild
Author: Stephen Hartley [aut, cre] (PhD),
Simon Anders [cph],
Alejandro Reyes [cph]
Maintainer: Stephen Hartley <JunctionSeq-contact@list.nih.gov>

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'JunctionSeq' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'JunctionSeq'
    finding HTML links ... done
    JunctionSeqCountSet-class               html  
    finding level-2 HTML links ... done

    buildAllPlots                           html  
    buildAllPlotsForGene                    html  
    defaultColorList                        html  
    estimateEffectSizes                     html  
    estimateJunctionSeqDispersions          html  
    estimateJunctionSeqSizeFactors          html  
    fitJunctionSeqDispersionFunction        html  
    plotDispEsts                            html  
    plotJunctionSeqResultsForGene           html  
    plotMA                                  html  
    readAnnotationData                      html  
    readJunctionSeqCounts                   html  
    runJunctionSeqAnalyses                  html  
    testForDiffUsage                        html  
    writeBedTrack                           html  
    writeCompleteResults                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (JunctionSeq)
Making 'packages.html' ... done