netReg
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 netReg.
Network-Regularized Regression Models
Bioconductor version: 3.8
netReg fits linear regression models using network-penalization. Graph prior knowledge, in the form of biological networks, is being incorporated into the loss function of the linear model. The networks describe biological relationships such as co-regulation or dependency of the same transcription factors/metabolites/etc. yielding a part sparse and part smooth solution for coefficient profiles.
Author: Simon Dirmeier [aut, cre]
Maintainer: Simon Dirmeier <simon.dirmeier at web.de>
citation("netReg")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("netReg")
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("netReg")| netReg | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | FeatureExtraction, GraphAndNetwork, Network, Regression, Software, StatisticalMethod |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7 years) |
| License | GPL-3 | BSL-1.0 + file LICENSE |
| Depends | R (>= 3.4) |
| Imports | Rcpp, stats |
| System Requirements | C++11 |
| URL | https://github.com/dirmeier/netReg |
| Bug Reports | https://github.com/dirmeier/netReg/issues |
See More
| Suggests | testthat, knitr, rmarkdown, BiocStyle, lintr, lassoshooting |
| Linking To | Rcpp, RcppArmadillo |
| 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 | netReg_1.6.0.tar.gz |
| Windows Binary | netReg_1.6.0.zip |
| Mac OS X 10.11 (El Capitan) | netReg_1.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/netReg |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/netReg |
| Bioc Package Browser | https://code.bioconductor.org/browse/netReg/ |
| Package Short Url | https://bioconductor.org/packages/netReg/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.8 | Source Archive |