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BioNAR

This is the development version of BioNAR; for the stable release version, see BioNAR.

Biological Network Analysis in R


Bioconductor version: Development (3.19)

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>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")
BioNAR: Biological Network Analysis in R HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GraphAndNetwork, Network, Software
Version 1.5.1
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License Artistic-2.0
Depends R (>= 3.5.0), igraph (>= 1.6.0), poweRlaw, latex2exp, RSpectra, Rdpack
Imports stringr, viridis, clusterCons, fgsea, grid, methods, AnnotationDbi, dplyr, GO.db, org.Hs.eg.db, rSpectral, WGCNA, ggplot2, ggrepel, minpack.lm, cowplot, data.table, scales, stats, Matrix
System Requirements
URL
Bug Reports https://github.com/lptolik/BioNAR/issues/
See More
Suggests knitr, BiocStyle, magick, rmarkdown, igraphdata, testthat (>= 3.0.0), vdiffr, devtools, pander, plotly, randomcoloR
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package BioNAR_1.5.1.tar.gz
Windows Binary BioNAR_1.5.1.zip (64-bit only)
macOS Binary (x86_64) BioNAR_1.5.1.tgz
macOS Binary (arm64) BioNAR_1.5.1.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