CBNplot

DOI: 10.18129/B9.bioc.CBNplot  

plot bayesian network inferred from gene expression data based on enrichment analysis results

Bioconductor version: Release (3.17)

This package provides the visualization of bayesian network inferred from gene expression data. The networks are based on enrichment analysis results inferred from packages including clusterProfiler and ReactomePA. The networks between pathways and genes inside the pathways can be inferred and visualized.

Author: Noriaki Sato [cre, aut]

Maintainer: Noriaki Sato <nori at hgc.jp>

Installation

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

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

BiocManager::install("CBNplot")

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("CBNplot")

 

HTML	R Script	CBNplot
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bayesian, GeneExpression, GeneSetEnrichment, Network, NetworkEnrichment, NetworkInference, Pathways, Reactome, Software, Visualization
Version	1.0.0
In Bioconductor since	BioC 3.17 (R-4.3) (< 6 months)
License	Artistic-2.0
Depends	R (>= 4.3.0)
Imports	ggplot2, magrittr, graphite, ggraph, igraph, bnlearn (>= 4.7), patchwork, org.Hs.eg.db, clusterProfiler, utils, enrichplot, reshape2, ggforce, dplyr, tidyr, stringr, depmap, ExperimentHub, Rmpfr, graphlayouts, BiocFileCache, ggdist, purrr, pvclust, stats, rlang, oaqc
LinkingTo
Suggests	knitr, arules, concaveman, ReactomePA, bnviewer, DESeq2, GEOquery, rmarkdown, withr, BiocStyle, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL	https://github.com/noriakis/CBNplot
BugReports	https://github.com/noriakis/CBNplot/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	CBNplot_1.0.0.tar.gz
Windows Binary	CBNplot_1.0.0.zip
macOS Binary (x86_64)	CBNplot_1.0.0.tgz
macOS Binary (arm64)	CBNplot_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/CBNplot
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/CBNplot
Bioc Package Browser	https://code.bioconductor.org/browse/CBNplot/
Package Short Url	https://bioconductor.org/packages/CBNplot/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive