SVM {ZetaSuite}

Find a SVM curve to separate positive and negative controls.

Description

Radical kernel SVM is constructed to maximally separate positive controls from negative controls in the prior defined Z range using e1071 packages of R, and therefore, the SVM curve is generated.

Usage

SVM(ECdataList)

Arguments

ECdataList

data list of output EventCoverage, names of list shoule be 'EC_N_D', 'EC_P_D', 'EC_N_I', 'EC_P_I' and 'ZseqList'

Value

A list of data.frame, including 'cutOffD' and 'cutOffI'.cutOffD and cutOffI are the deduced SVM.

Author(s)

Yajing Hao, Shuyang Zhang, Junhui Li, Guofeng Zhao, Xiang-Dong Fu

Examples

data(countMat)
data(negGene)
data(posGene)
ZscoreVal <- Zscore(countMat,negGene)
ECdataList <- EventCoverage(ZscoreVal,negGene,posGene,binNum=10,combine=TRUE)
SVM(ECdataList)