GRridge

DOI: 10.18129/B9.bioc.GRridge    

Better prediction by use of co-data: Adaptive group-regularized ridge regression

Bioconductor version: Release (3.6)

This package allows the use of multiple sources of co-data (e.g. external p-values, gene lists, annotation) to improve prediction of binary, continuous and survival response using (logistic, linear or Cox) group-regularized ridge regression. It also facilitates post-hoc variable selection and prediction diagnostics by cross-validation using ROC curves and AUC.

Author: Mark A. van de Wiel <mark.vdwiel at vumc.nl>

Maintainer: Mark A. van de Wiel <mark.vdwiel at vumc.nl>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("GRridge")

Documentation

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

browseVignettes("GRridge")

 

PDF	R Script	GRridge
PDF		Reference Manual
Text		NEWS

Details

biocViews	Bayesian, Classification, GO, GeneExpression, GenePrediction, GeneSetEnrichment, GraphAndNetwork, KEGG, Pathways, RNASeq, Regression, Software, Survival
Version	1.2.0
In Bioconductor since	BioC 3.5 (R-3.4) (1 year)
License	GPL-3
Depends	R (>= 3.3), penalized, Iso, survival, GSEABase, BiocGenerics, Biobase, annotate, methods, graph, stats
Imports
LinkingTo
Suggests	testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Source Package	GRridge_1.2.0.tar.gz
Windows Binary	GRridge_1.2.0.zip
Mac OS X 10.11 (El Capitan)	GRridge_1.2.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GRridge
Package Short Url	http://bioconductor.org/packages/GRridge/
Package Downloads Report	Download Stats