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

DOI: 10.18129/B9.bioc.pcaExplorer    

This is the development version of pcaExplorer; for the stable release version, see pcaExplorer.

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

Bioconductor version: Development (3.6)

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, ReportWriting, Software, Visualization
Version 2.3.1
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
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, shinyAce, threejs, biomaRt, pheatmap, knitr, rmarkdown, tidyr, grDevices, methods
LinkingTo
Suggests testthat, BiocStyle, 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 ideal
Suggests Me DASC
Build Report  

Package Archives

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

Source Package pcaExplorer_2.3.1.tar.gz
Windows Binary pcaExplorer_2.3.1.zip
Mac OS X 10.11 (El Capitan) pcaExplorer_2.3.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/pcaExplorer
Package Short Url http://bioconductor.org/packages/pcaExplorer/
Package Downloads Report Download Stats

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