biosigner
This is the development version of biosigner; for the stable release version, see biosigner.
Signature discovery from omics data
Bioconductor version: Development (3.20)
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 [aut], Etienne A. Thevenot [aut, cre]
Maintainer: Etienne A. Thevenot <etienne.thevenot at cea.fr>
citation("biosigner")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("biosigner")
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("biosigner")
biosigner-vignette | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | Classification, FeatureExtraction, Lipidomics, MassSpectrometry, Metabolomics, Proteomics, Software, Transcriptomics |
Version | 1.33.0 |
In Bioconductor since | BioC 3.3 (R-3.3) (8.5 years) |
License | CeCILL |
Depends | |
Imports | Biobase, methods, e1071, grDevices, graphics, MultiAssayExperiment, MultiDataSet, randomForest, ropls, stats, SummarizedExperiment, utils |
System Requirements | |
URL | http://dx.doi.org/10.3389/fmolb.2016.00026 |
See More
Suggests | BioMark, BiocGenerics, BiocStyle, golubEsets, hu6800.db, knitr, omicade4, rmarkdown, testthat |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | phenomis |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | biosigner_1.33.0.tar.gz |
Windows Binary | biosigner_1.33.0.zip (64-bit only) |
macOS Binary (x86_64) | biosigner_1.33.0.tgz |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/biosigner |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/biosigner |
Bioc Package Browser | https://code.bioconductor.org/browse/biosigner/ |
Package Short Url | https://bioconductor.org/packages/biosigner/ |
Package Downloads Report | Download Stats |