GNET2
Constructing gene regulatory networks from expression data through functional module inference
Bioconductor version: Release (3.19)
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 "4.4") 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 | ||
NEWS | Text |
Details
biocViews | GeneExpression, Network, NetworkInference, Regression, Software |
Version | 1.20.0 |
In Bioconductor since | BioC 3.9 (R-3.6) (5.5 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 |
See More
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_1.20.0.tar.gz |
Windows Binary | GNET2_1.20.0.zip |
macOS Binary (x86_64) | GNET2_1.20.0.tgz |
macOS Binary (arm64) | GNET2_1.20.0.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 |