To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

biosigner

DOI: 10.18129/B9.bioc.biosigner    

Signature discovery from omics data

Bioconductor version: Release (3.5)

Feature selection is critical in omics data analysis to extract restricted and meaningful molecular signatures from complex and high-dimension data, and to build robust classifiers. This package implements a new method to assess the relevance of the variables for the prediction performances of the classifier. The approach can be run in parallel with the PLS-DA, Random Forest, and SVM binary classifiers. The signatures and the corresponding 'restricted' models are returned, enabling future predictions on new datasets. A Galaxy implementation of the package is available within the Workflow4metabolomics.org online infrastructure for computational metabolomics.

Author: Philippe Rinaudo <phd.rinaudo at gmail.com>, Etienne Thevenot <etienne.thevenot at cea.fr>

Maintainer: Philippe Rinaudo <phd.rinaudo at gmail.com>, Etienne Thevenot <etienne.thevenot at cea.fr>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("biosigner")

 

PDF R Script Vignette Title
PDF   Reference Manual
Text   NEWS

Details

biocViews Classification, FeatureExtraction, Lipidomics, Metabolomics, Proteomics, Software, Transcriptomics
Version 1.4.0
In Bioconductor since BioC 3.3 (R-3.3) (1.5 years)
License CeCILL
Depends
Imports methods, e1071, randomForest, ropls, Biobase
LinkingTo
Suggests BioMark, RUnit, BiocGenerics, BiocStyle, golubEsets, hu6800.db, knitr, rmarkdown
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.

Package Source biosigner_1.4.0.tar.gz
Windows Binary biosigner_1.4.0.zip
Mac OS X 10.11 (El Capitan) biosigner_1.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/biosigner
Package Short Url http://bioconductor.org/packages/biosigner/
Package Downloads Report Download Stats

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