Bioconductor version: Release (3.6)
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 at med.wayne.edu>; Zhonghui Xu <zhonghui.xu at gmail.com>
Maintainer: Adi Laurentiu Tarca <atarca at med.wayne.edu>
Citation (from within R,
enter citation("PADOG")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("PADOG")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("PADOG")
R Script | PADOG | |
Reference Manual |
biocViews | Microarray, OneChannel, Software, TwoChannel |
Version | 1.20.0 |
In Bioconductor since | BioC 2.11 (R-2.15) (5.5 years) |
License | GPL (>= 2) |
Depends | R (>= 3.0.0), KEGGdzPathwaysGEO, methods, Biobase |
Imports | limma, AnnotationDbi, GSA, foreach, doRNG, hgu133plus2.db, hgu133a.db, KEGG.db, nlme |
LinkingTo | |
Suggests | doParallel, parallel |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | BLMA |
Imports Me | EGSEA |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | PADOG_1.20.0.tar.gz |
Windows Binary | PADOG_1.20.0.zip |
Mac OS X 10.11 (El Capitan) | PADOG_1.20.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/PADOG |
Package Short Url | http://bioconductor.org/packages/PADOG/ |
Package Downloads Report | Download Stats |
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