GRridge

DOI: 10.18129/B9.bioc.GRridge    

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

Bioconductor version: Release (3.7)

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>, Putri W. Novianti <p.novianti at vumc.nl>

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

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

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 1.4.0
In Bioconductor since BioC 3.5 (R-3.4) (1.5 years)
License GPL-3
Depends R (>= 3.2), penalized, Iso, survival, methods, graph, stats, glmnet, mvtnorm
Imports
LinkingTo
Suggests testthat
SystemRequirements
Enhances
URL
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 GRridge_1.4.0.tar.gz
Windows Binary GRridge_1.4.0.zip
Mac OS X 10.11 (El Capitan) GRridge_1.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GRridge
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GRridge
Package Short Url http://bioconductor.org/packages/GRridge/
Package Downloads Report Download Stats

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