GNET2

DOI: 10.18129/B9.bioc.GNET2    

Constructing gene regulatory networks from expression data through functional module inference

Bioconductor version: Release (3.9)

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 "3.6") and enter:

if (!requireNamespace("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")

 

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

Details

biocViews GeneExpression, Network, NetworkInference, Regression, Software
Version 1.0.0
In Bioconductor since BioC 3.9 (R-3.6) (< 6 months)
License Apache License 2.0
Depends R (>= 3.5)
Imports ggplot2, xgboost, Rcpp, reshape2, grid, DiagrammeR, methods, stats, matrixStats, graphics, SummarizedExperiment
LinkingTo Rcpp
Suggests knitr, rmarkdown
SystemRequirements
Enhances
URL https://github.com/chrischen1/GNET2
BugReports https://github.com/chrischen1/GNET2/issues
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 GNET2_1.0.0.tar.gz
Windows Binary GNET2_1.0.0.zip
Mac OS X 10.11 (El Capitan) GNET2_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GNET2
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GNET2
Package Short Url http://bioconductor.org/packages/GNET2/
Package Downloads Report Download Stats

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