pcaGoPromoter: pcaGoPromoter is used to analyze DNA micro array data

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
Date of publication
None
Maintainer
Morten Hansen <mhansen@sund.ku.dk>
License
GPL (>= 2)
Version
1.18.0

View on Bioconductor

Man pages

GOtree
GOtree, plot.GOtree and GOtreeWithLeaveOneOut
pca
pca - Principal Component Analysis (PCA)
pcaGoPromoter-package
Tools for analyzing data from DNA micro arrays.
primo
primo, primoHits and primoWithLeaveOut
primoData
primoData

Files in this package

pcaGoPromoter/DESCRIPTION
pcaGoPromoter/NAMESPACE
pcaGoPromoter/R
pcaGoPromoter/R/GOtree.R
pcaGoPromoter/R/common.R
pcaGoPromoter/R/pca.R
pcaGoPromoter/R/primo.R
pcaGoPromoter/R/primoData.R
pcaGoPromoter/build
pcaGoPromoter/build/vignette.rds
pcaGoPromoter/inst
pcaGoPromoter/inst/CITATION
pcaGoPromoter/inst/doc
pcaGoPromoter/inst/doc/pcaGoPromoter.R
pcaGoPromoter/inst/doc/pcaGoPromoter.Rnw
pcaGoPromoter/inst/doc/pcaGoPromoter.pdf
pcaGoPromoter/man
pcaGoPromoter/man/GOtree.Rd
pcaGoPromoter/man/pca.Rd
pcaGoPromoter/man/pcaGoPromoter-package.Rd
pcaGoPromoter/man/primo.Rd
pcaGoPromoter/man/primoData.Rd
pcaGoPromoter/vignettes
pcaGoPromoter/vignettes/pcaGoPromoter.Rnw