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BioNAR

Biological Network Analysis in R

Bioconductor version: 3.23 · Package version: 1.14.0

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.

Installation

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

BiocManager::install("BioNAR")

Details

MaintainerAnatoly Sorokin <lptolik@gmail.com>
AuthorColin Mclean [aut], Anatoly Sorokin [aut, cre], Oksana Sorokina [aut], J. Douglas Armstrong [aut, fnd], T. Ian Simpson [ctb, fnd]
LicenseArtistic-2.0
Bug Reportshttps://github.com/lptolik/BioNAR/issues/
Downloads rank240
Source branchRELEASE_3_23
biocViewsGraphAndNetwork, Network, Software

Documentation

Download

Dependencies

Depends: R (>= 3.5.0), igraph (>= 2.0.1.1), poweRlaw, latex2exp, RSpectra, Rdpack

Imports: stringr, viridis, fgsea, grid, methods, AnnotationDbi, dplyr, GO.db, org.Hs.eg.db (>= 3.19.1), rSpectral, WGCNA, ggplot2, ggrepel, minpack.lm, cowplot, data.table, scales, stats, Matrix

Suggests: knitr, BiocStyle, magick, rmarkdown, igraphdata, testthat (>= 3.0.0), vdiffr, devtools, pander, plotly, randomcoloR