DriverNet

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12

Drivernet: uncovering somatic driver mutations modulating transcriptional networks in cancer

Bioconductor version: Development (3.24)

DriverNet is a package to predict functional important driver genes in cancer by integrating genome data (mutation and copy number variation data) and transcriptome data (gene expression data). The different kinds of data are combined by an influence graph, which is a gene-gene interaction network deduced from pathway data. A greedy algorithm is used to find the possible driver genes, which may mutated in a larger number of patients and these mutations will push the gene expression values of the connected genes to some extreme values.

Author: Ali Bashashati, Reza Haffari, Jiarui Ding, Gavin Ha, Kenneth Liu, Jamie Rosner and Sohrab Shah

Maintainer: Jiarui Ding <jiaruid at cs.ubc.ca>

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

Ali Bashashati, Reza Haffari, Jiarui Ding, Gavin Ha, Kenneth Liu, Jamie Rosner and Sohrab Shah. DriverNet: Drivernet: uncovering somatic driver mutations modulating transcriptional networks in cancer. doi:10.18129/B9.bioc.DriverNet, R package version 1.53.0, https://bioconductor.org/packages/DriverNet.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("DriverNet")

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("DriverNet")

An introduction to DriverNet	PDF	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Network, Software
Version	1.53.0
In Bioconductor since	BioC 2.12 (R-3.0) (13.5 years)
License	GPL-3
Depends	R (>= 2.10), methods
Imports
System Requirements
URL

Suggests
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	DriverNet_1.53.0.tar.gz
Windows Binary (x86_64)	DriverNet_1.53.0.zip
macOS Binary (big-sur-x86_64)	DriverNet_1.53.0.tgz
macOS Binary (sonoma-arm64)	DriverNet_1.53.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/DriverNet
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/DriverNet
Package Short Url	https://bioconductor.org/packages/DriverNet/
Package Downloads Report	Download Stats