geNetClassifier

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see geNetClassifier.

Classify diseases and build associated gene networks using gene expression profiles


Bioconductor version: 3.9

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 "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

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 1.24.0
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
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
Build Report Build Report

Package Archives

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

Source Package geNetClassifier_1.24.0.tar.gz
Windows Binary geNetClassifier_1.24.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) geNetClassifier_1.24.0.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/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive