To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pcaExplorer")

In most cases, you don't need to download the package archive at all.

pcaExplorer

This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see pcaExplorer.

Interactive Visualization of RNA-seq Data Using a Principal Components Approach

Bioconductor version: 3.3

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.

Author: Federico Marini [aut, cre]

Maintainer: Federico Marini <marinif at uni-mainz.de>

Citation (from within R, enter citation("pcaExplorer")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pcaExplorer")

Documentation

HTML	R Script	pcaExplorer User Guide
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DimensionReduction, GUI, PrincipalComponent, QualityControl, RNASeq, Software, Visualization
Version	1.0.2
In Bioconductor since	BioC 3.3 (R-3.3) (< 6 months)
License	MIT + file LICENSE
Depends
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, methods
LinkingTo
Suggests	knitr, testthat, BiocStyle, rmarkdown, airway, org.Hs.eg.db
SystemRequirements
Enhances
URL	https://github.com/federicomarini/pcaExplorer
BugReports	https://github.com/federicomarini/pcaExplorer/issues
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	pcaExplorer_1.0.2.tar.gz
Windows Binary	pcaExplorer_1.0.2.zip
Mac OS X 10.9 (Mavericks)	pcaExplorer_1.0.2.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/pcaExplorer/tree/release-3.3
Package Short Url	http://bioconductor.org/packages/pcaExplorer/
Package Downloads Report	Download Stats

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