signet

This package is for version 3.8 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: 3.8

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>

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

Installation

To install this package, start R (version "3.5") 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

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("signet")
signet tutorial HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DifferentialExpression, GeneExpression, GraphAndNetwork, KEGG, NetworkEnrichment, Pathways, Software
Version 1.2.3
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 signet_1.2.3.tar.gz
Windows Binary signet_1.2.3.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) signet_1.2.3.tgz
Source Repository git clone https://git.bioconductor.org/packages/signet
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/signet
Bioc Package Browser https://code.bioconductor.org/browse/signet/
Package Short Url https://bioconductor.org/packages/signet/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.8 Source Archive