DOI: 10.18129/B9.bioc.pcaGoPromoter    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see pcaGoPromoter.

pcaGoPromoter is used to analyze DNA micro array data

Bioconductor version: 3.7

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>

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PDF   Reference Manual


biocViews GO, GeneExpression, Microarray, Software, Visualization
Version 1.24.0
In Bioconductor since BioC 2.10 (R-2.15) (6.5 years)
License GPL (>= 2)
Depends R (>= 2.14.0), ellipse, Biostrings
Imports AnnotationDbi
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
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Source Package pcaGoPromoter_1.24.0.tar.gz
Windows Binary pcaGoPromoter_1.24.0.zip
Mac OS X 10.11 (El Capitan) pcaGoPromoter_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/pcaGoPromoter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pcaGoPromoter
Package Short Url http://bioconductor.org/packages/pcaGoPromoter/
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