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pageRank

Temporal and Multiplex PageRank for Gene Regulatory Network Analysis


Bioconductor version: Release (3.18)

Implemented temporal PageRank analysis as defined by Rozenshtein and Gionis. Implemented multiplex PageRank as defined by Halu et al. Applied temporal and multiplex PageRank in gene regulatory network analysis.

Author: Hongxu Ding [aut, cre, ctb, cph]

Maintainer: Hongxu Ding <hd2326 at columbia.edu>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("pageRank")

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("pageRank")
introduction.pdf PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneTarget, Network, Software, StatisticalMethod
Version 1.12.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL-2
Depends R (>= 4.0)
Imports GenomicRanges, igraph, motifmatchr, stats, utils, grDevices, graphics
System Requirements
URL https://github.com/hd2326/pageRank
Bug Reports https://github.com/hd2326/pageRank/issues
See More
Suggests bcellViper, BSgenome.Hsapiens.UCSC.hg19, JASPAR2018, TxDb.Hsapiens.UCSC.hg19.knownGene, org.Hs.eg.db, TFBSTools, GenomicFeatures, annotate
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Package Archives

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

Source Package pageRank_1.12.0.tar.gz
Windows Binary pageRank_1.12.0.zip
macOS Binary (x86_64) pageRank_1.12.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/pageRank
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pageRank
Bioc Package Browser https://code.bioconductor.org/browse/pageRank/
Package Short Url https://bioconductor.org/packages/pageRank/
Package Downloads Report Download Stats