geNetClassifier

This is the development version of geNetClassifier; for the stable release version, see geNetClassifier.

Classify diseases and build associated gene networks using gene expression profiles


Bioconductor version: Development (3.20)

Comprehensive package to automatically train and validate a multi-class SVM classifier based on gene expression data. Provides transparent selection of gene markers, their coexpression networks, and an interface to query the classifier.

Author: Sara Aibar, Celia Fontanillo and Javier De Las Rivas. Bioinformatics and Functional Genomics Group. Cancer Research Center (CiC-IBMCC, CSIC/USAL). Salamanca. Spain.

Maintainer: Sara Aibar <saibar at usal.es>

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

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("geNetClassifier")

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("geNetClassifier")
geNetClassifier-vignette PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Classification, DifferentialExpression, Microarray, Software
Version 1.45.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License GPL (>= 2)
Depends R (>= 2.10.1), Biobase(>= 2.5.5), EBarrays, minet, methods
Imports e1071, graphics, grDevices
System Requirements
URL http://www.cicancer.org
See More
Suggests leukemiasEset, RUnit, BiocGenerics
Linking To
Enhances RColorBrewer, igraph, infotheo
Depends On Me
Imports Me bioCancer, canceR
Suggests Me
Links To Me
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Package Archives

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

Source Package geNetClassifier_1.45.0.tar.gz
Windows Binary geNetClassifier_1.45.0.zip (64-bit only)
macOS Binary (x86_64) geNetClassifier_1.45.0.tgz
macOS Binary (arm64) geNetClassifier_1.45.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/geNetClassifier
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/geNetClassifier
Bioc Package Browser https://code.bioconductor.org/browse/geNetClassifier/
Package Short Url https://bioconductor.org/packages/geNetClassifier/
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