pcaGoPromoter

pcaGoPromoter is used to analyze DNA micro array data

Bioconductor version: 2.10

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>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("pcaGoPromoter")

To cite this package in a publication, start R and enter:

    citation("pcaGoPromoter")

Documentation

PDF	R Script	pcaGoPromoter
PDF		Reference Manual

Details

biocViews	GO, GeneExpression, Microarray, Software, Visualization
Depends	R (>= 2.14.0), ellipse
Imports	Biobase(>= 2.10.0), AnnotationDbi
Suggests	Rgraphviz, GO.db, hgu133plus2.db, mouse4302.db, rat2302.db, hugene10sttranscriptcluster.db, mogene10sttranscriptcluster.db, Biostrings, pcaGoPromoter.Hs.hg19, pcaGoPromoter.Mm.mm9, pcaGoPromoter.Rn.rn4, serumStimulation, parallel
System Requirements
License	GPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me
Version	1.0.0
Since	Bioconductor 2.10 (R-2.15)

Package Downloads

Package Source	pcaGoPromoter_1.0.0.tar.gz
Windows Binary	pcaGoPromoter_1.0.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	pcaGoPromoter_1.0.0.tgz
Package Downloads Report	Download Stats

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