geNetClassifier-package: classify diseases and build associated gene networks using...

In geNetClassifier: Classify diseases and build associated gene networks using gene expression profiles

Description

Comprehensive package to automatically train 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.

Details

Package:	geNetClassifier
Type:	Package
Version:	1.0
Date:	2013-02-28
License:	GPL (>=2)
LazyLoad:	yes
Depends:	R (>= 2.10.1), Biobase (>= 2.5.5), EBarrays, minet, methods
Imports:	e1071, ipred, graphics
Suggests:	leukemiasEset
Enhances:	RColorBrewer, igraph

Author(s)

Sara Aibar, Celia Fontanillo and Javier De Las Rivas
Bioinformatics and Functional Genomics Group. Centro de Investigacion del Cancer (CIC-IBMCC, CSIC/USAL). Salamanca. Spain.
Maintainer: Sara Aibar <[e-mail]>

See Also

Main functions included in this package:

• geNetClassifier

• queryGeNetClassifier

Query stats funtions:

• querySummary

• externalValidation.probMatrix

• externalValidation.stats

• plotAssignments

Plots and genes info:

• calculateGenesRanking

• plotNetwork

• plotDiscriminantPower

• plotExpressionProfiles

Classes:

• GenesRanking

• GenesNetwork

• GeNetClassifierReturn

• GeneralizationError

Related data sets:

• leukemiasEset

geNetClassifier documentation built on Nov. 8, 2020, 4:53 p.m.