signet

DOI: 10.18129/B9.bioc.signet    

signet: Selection Inference in Gene NETworks

Bioconductor version: Release (3.11)

An R package to detect selection in biological pathways. Using gene selection scores and biological pathways data, one can search for high-scoring subnetworks of genes within pathways and test their significance.

Author: Alexandre Gouy [aut, cre]

Maintainer: Alexandre Gouy <alexandre.gouy at iee.unibe.ch>

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("signet")

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("signet")

 

HTML	R Script	signet tutorial
PDF		Reference Manual
Text		NEWS

Details

biocViews	DifferentialExpression, GeneExpression, GraphAndNetwork, KEGG, NetworkEnrichment, Pathways, Software
Version	1.7.0
In Bioconductor since	BioC 3.7 (R-3.5) (2.5 years)
License	GPL-2
Depends	R (>= 3.4.0)
Imports	graph, igraph, RBGL, graphics, utils, stats, methods
LinkingTo
Suggests	graphite, BiocStyle, knitr, rmarkdown
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	signet_1.7.0.tar.gz
Windows Binary	signet_1.7.0.zip
macOS 10.13 (High Sierra)
Source Repository	git clone https://git.bioconductor.org/packages/signet
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/signet
Package Short Url	https://bioconductor.org/packages/signet/
Package Downloads Report	Download Stats