GNET2

This is the released version of GNET2; for the devel version, see GNET2.

Constructing gene regulatory networks from expression data through functional module inference

Bioconductor version: Release (3.21)

Cluster genes to functional groups with E-M process. Iteratively perform TF assigning and Gene assigning, until the assignment of genes did not change, or max number of iterations is reached.

Author: Chen Chen, Jie Hou and Jianlin Cheng

Maintainer: Chen Chen <ccm3x at mail.missouri.edu>

Citation (from within R, enter citation("GNET2")):

Installation

To install this package, start R (version "4.5") and enter:

 if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("GNET2")

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("GNET2")

Build functional gene modules with GNET2	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpression, Network, NetworkInference, Regression, Software
Version	1.24.0
In Bioconductor since	BioC 3.9 (R-3.6) (6 years)
License	Apache License 2.0
Depends	R (>= 3.6)
Imports	ggplot2, xgboost, Rcpp, reshape2, grid, DiagrammeR, methods, stats, matrixStats, graphics, SummarizedExperiment, dplyr, igraph, grDevices, utils
System Requirements
URL	https://github.com/chrischen1/GNET2
Bug Reports	https://github.com/chrischen1/GNET2/issues

Suggests	knitr, rmarkdown
Linking To	Rcpp
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	GNET2_1.24.0.tar.gz
Windows Binary (x86_64)	GNET2_1.24.0.zip
macOS Binary (x86_64)	GNET2_1.24.0.tgz
macOS Binary (arm64)	GNET2_1.24.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GNET2
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/GNET2
Bioc Package Browser	https://code.bioconductor.org/browse/GNET2/
Package Short Url	https://bioconductor.org/packages/GNET2/
Package Downloads Report	Download Stats