signet

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.12 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see signet.

signet: Selection Inference in Gene NETworks


Bioconductor version: 3.12

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 <alexandre.gouy at iee.unibe.ch>

Maintainer: <>

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

Installation

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


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

BiocManager::install("signet")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews DifferentialExpression, GeneExpression, GraphAndNetwork, KEGG, NetworkEnrichment, Pathways, Software
Version 1.10.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License GPL-2
Depends R (>= 3.4.0)
Imports graph, igraph, RBGL, graphics, utils, stats, methods
System Requirements
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Suggests graphite, BiocStyle, knitr, rmarkdown
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Package Archives

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

Source Package
Windows Binary
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/
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Old Source Packages for BioC 3.12 Source Archive