pageRank

This is the released version of pageRank; for the devel version, see pageRank.

Temporal and Multiplex PageRank for Gene Regulatory Network Analysis

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DOI: 10.18129/B9.bioc.pageRank

Bioconductor version: Release (3.22)

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 "4.5") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GeneTarget, Network, Software, StatisticalMethod

Version 1.20.0

In Bioconductor since BioC 3.12 (R-4.0) (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

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_1.20.0.tar.gz

Windows Binary (x86_64) pageRank_1.20.0.zip

macOS Binary (x86_64) pageRank_1.20.0.tgz

macOS Binary (arm64) pageRank_1.20.0.tgz

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/

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