Bioconductor version: Release (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")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("pcaExplorer")
HTML | R Script | pcaExplorer User Guide |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | DimensionReduction, GUI, PrincipalComponent, QualityControl, RNASeq, ReportWriting, Software, Visualization |
Version | 2.4.0 |
In Bioconductor since | BioC 3.3 (R-3.3) (2 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 |
Follow Installation instructions to use this package in your R session.
Source Package | pcaExplorer_2.4.0.tar.gz |
Windows Binary | pcaExplorer_2.4.0.zip |
Mac OS X 10.11 (El Capitan) | pcaExplorer_2.4.0.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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