To install this package, start R and enter:

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

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

pcaGoPromoter

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see pcaGoPromoter.

pcaGoPromoter is used to analyze DNA micro array data

Bioconductor version: 3.4

This package contains functions to ease the analyses of DNA micro arrays. It utilizes principal component analysis as the initial multivariate analysis, followed by functional interpretation of the principal component dimensions with overrepresentation analysis for GO terms and regulatory interpretations using overrepresentation analysis of predicted transcription factor binding sites with the primo algorithm.

Author: Morten Hansen, Jorgen Olsen

Maintainer: Morten Hansen <mhansen at sund.ku.dk>

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

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter: 

browseVignettes("pcaGoPromoter")
PDF R Script pcaGoPromoter
PDF Reference Manual

Details

biocViews GO, GeneExpression, Microarray, Software, Visualization
Version 1.18.0
In Bioconductor since BioC 2.10 (R-2.15) (5 years)
License GPL (>= 2)
Depends R (>= 2.14.0), ellipse, Biostrings
Imports AnnotationDbi
LinkingTo
Suggests Rgraphviz, GO.db, hgu133plus2.db, mouse4302.db, rat2302.db, hugene10sttranscriptcluster.db, mogene10sttranscriptcluster.db, pcaGoPromoter.Hs.hg19, pcaGoPromoter.Mm.mm9, pcaGoPromoter.Rn.rn4, serumStimulation, parallel
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source pcaGoPromoter_1.18.0.tar.gz
Windows Binary pcaGoPromoter_1.18.0.zip
Mac OS X 10.9 (Mavericks) pcaGoPromoter_1.18.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/pcaGoPromoter/tree/release-3.4
Package Short Url http://bioconductor.org/packages/pcaGoPromoter/
Package Downloads Report Download Stats

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