BioNAR

DOI: 10.18129/B9.bioc.BioNAR  

Biological Network Analysis in R

Bioconductor version: Release (3.16)

the R package BioNAR, developed to step by step analysis of PPI network. The aim is to quantify and rank each protein’s simultaneous impact into multiple complexes based on network topology and clustering. Package also enables estimating of co-occurrence of diseases across the network and specific clusters pointing towards shared/common mechanisms.

Author: Colin Mclean [aut], Anatoly Sorokin [aut, cre], Oksana Sorokina [aut], J. Douglas Armstrong [aut, fnd], T. Ian Simpson [ctb, fnd]

Maintainer: Anatoly Sorokin <lptolik at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("BioNAR")

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("BioNAR")

 

HTML	R Script	BioNAR_overview
PDF		Reference Manual
Text		NEWS

Details

biocViews	GraphAndNetwork, Network, Software
Version	1.0.0
In Bioconductor since	BioC 3.16 (R-4.2) (< 6 months)
License	Artistic-2.0
Depends	R (>= 3.5.0), igraph, poweRlaw, latex2exp, RSpectra, Rdpack
Imports	stringr, synaptome.db, clusterCons, fgsea, grid, methods, scales, AnnotationDbi, dplyr, GO.db, org.Hs.eg.db, rSpectral, WGCNA, ggplot2, ggrepel
LinkingTo
Suggests	knitr, rmarkdown, igraphdata, testthat (>= 3.0.0), vdiffr, devtools, pander, plotly, randomcoloR
SystemRequirements
Enhances
URL
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	BioNAR_1.0.0.tar.gz
Windows Binary	BioNAR_1.0.0.zip
macOS Binary (x86_64)	BioNAR_1.0.0.tgz
macOS Binary (arm64)	BioNAR_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BioNAR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/BioNAR
Bioc Package Browser	https://code.bioconductor.org/browse/BioNAR/
Package Short Url	https://bioconductor.org/packages/BioNAR/
Package Downloads Report	Download Stats