pageRank

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see pageRank.

Temporal and Multiplex PageRank for Gene Regulatory Network Analysis

Bioconductor version: 3.19

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 "4.4") 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 1.14.0

In Bioconductor since BioC 3.12 (R-4.0) (4 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_1.14.0.tar.gz

Windows Binary (x86_64) pageRank_1.14.0.zip

macOS Binary (x86_64) pageRank_1.14.0.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/

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