Last data update: 2014.03.03


Package: pcaExplorer
Type: Package
Title: Interactive Visualization of RNA-seq Data Using a Principal
Components Approach
Version: 1.0.2
Date: 2016-03-29
Authors@R: c(person("Federico", "Marini", email =
"", role = c("aut", "cre")))
Maintainer: Federico Marini <>
Description: This package provides functionality for interactive
visualization of RNA-seq datasets based on Principal Components
Analysis. The methods provided allow for quick information
extraction and effective data exploration. A Shiny application
encapsulates the whole analysis.
License: MIT + file LICENSE
LazyData: TRUE
Imports: DESeq2, SummarizedExperiment, GenomicRanges, IRanges,
S4Vectors, genefilter, ggplot2 (>= 2.0.0), d3heatmap, scales,
NMF, plyr, topGO, limma, GOstats, GO.db, AnnotationDbi, shiny
(>= 0.12.0), shinydashboard, shinyBS, ggrepel, DT, grDevices,
Suggests: knitr, testthat, BiocStyle, rmarkdown, airway,
biocViews: Visualization, RNASeq, DimensionReduction,
PrincipalComponent, QualityControl, GUI
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Author: Federico Marini [aut, cre]
Packaged: 2016-05-16 06:09:49 UTC; biocbuild

● BiocViews: DimensionReduction, GUI, PrincipalComponent, QualityControl, RNASeq, Visualization
7 images, 11 functions, 0 datasets
● Reverse Depends: 0

Install log

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

    hi_loadings                             html  
    limmaquickpca2go                        html  
    makeExampleDESeqDataSet_multifac        html  
    pca2go                                  html  
    pcaExplorer                             html  
    pcaplot                                 html  
    pcascree                                html  
    plotPCcorrs                             html  
    topGOtable                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (pcaExplorer)
Making 'packages.html' ... done