PADOG: Pathway Analysis with Down-weighting of Overlapping Genes (PADOG)

This package implements a general purpose gene set analysis method called PADOG that downplays the importance of genes that apear often accross the sets of genes to be analyzed. The package provides also a benchmark for gene set analysis methods in terms of sensitivity and ranking using 24 public datasets from KEGGdzPathwaysGEO package.

Author
Adi Laurentiu Tarca <atarca@med.wayne.edu>; Zhonghui Xu <zhonghui.xu@gmail.com>
Date of publication
None
Maintainer
Adi Laurentiu Tarca <atarca@med.wayne.edu>
License
GPL (>= 2)
Version
1.16.0
URLs

View on Bioconductor

Man pages

filteranot
Remove duplicate probesets/probes from an gene expression...
padog
Pathway Analysis with Down-weighting of Overlapping Genes...

Files in this package

PADOG/COPYING
PADOG/DESCRIPTION
PADOG/NAMESPACE
PADOG/R
PADOG/R/compPADOG.R
PADOG/R/filteranot.R
PADOG/R/padog.R
PADOG/build
PADOG/build/vignette.rds
PADOG/inst
PADOG/inst/doc
PADOG/inst/doc/PADOG.R
PADOG/inst/doc/PADOG.Rnw
PADOG/inst/doc/PADOG.pdf
PADOG/man
PADOG/man/compPADOG.rd
PADOG/man/filteranot.Rd
PADOG/man/padog.Rd
PADOG/vignettes
PADOG/vignettes/PADOG.Rnw
PADOG/vignettes/PADOG.bib
PADOG/vignettes/Thumbs.db