biosigner: Signature discovery from omics data

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.

AuthorPhilippe Rinaudo <phd.rinaudo@gmail.com>, Etienne Thevenot <etienne.thevenot@cea.fr>
Date of publicationNone
MaintainerPhilippe Rinaudo <phd.rinaudo@gmail.com>, Etienne Thevenot <etienne.thevenot@cea.fr>
LicenseCeCILL
Version1.2.4

View on Bioconductor

Files in this package

biosigner/DESCRIPTION
biosigner/NAMESPACE
biosigner/NEWS
biosigner/R
biosigner/R/allClasses.R biosigner/R/allGenerics.R biosigner/R/biosigner-package.R biosigner/R/datasets.R biosigner/R/helpers.R biosigner/R/methods.R
biosigner/build
biosigner/build/vignette.rds
biosigner/data
biosigner/data/datalist
biosigner/data/diaplasma.rdata
biosigner/inst
biosigner/inst/CITATION
biosigner/inst/doc
biosigner/inst/doc/biosigner-vignette.R
biosigner/inst/doc/biosigner-vignette.Rmd
biosigner/inst/doc/biosigner-vignette.pdf
biosigner/inst/unitTests
biosigner/inst/unitTests/test_biosigner.R
biosigner/man
biosigner/man/biosign-class.Rd biosigner/man/biosign.Rd biosigner/man/biosigner-package.Rd biosigner/man/diaplasma.Rd biosigner/man/getAccuracyMN.Rd biosigner/man/getSignatureLs.Rd biosigner/man/plot.Rd biosigner/man/predict.Rd biosigner/man/show.Rd
biosigner/tests
biosigner/tests/runTests.R
biosigner/vignettes
biosigner/vignettes/biosigner-vignette.Rmd
biosigner/vignettes/biosigner-vignette.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.