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PADOG

This is the development version of PADOG; for the stable release version, see PADOG.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11

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

DOI: 10.18129/B9.bioc.PADOG

Bioconductor version: Development (3.24)

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 L. Tarca <atarca at med.wayne.edu>

Citation (from within R, enter citation("PADOG")):

Adi Laurentiu Tarca, Zhonghui Xu. PADOG: Pathway Analysis with Down-weighting of Overlapping Genes (PADOG). doi:10.18129/B9.bioc.PADOG, R package version 1.55.0, https://bioconductor.org/packages/PADOG.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("PADOG")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("PADOG")

Details

Package Archives

Follow Installation instructions to use this package in your R session.