Description Details Author(s) References Examples
DRWPClass-GM performs pathway-based classifier construction and precise disease status prediction by joint analysis of genomic and metabolomic data and pathway topology.
Package: | DRWPClassGM |
Type: | Package |
Version: | 1.0 |
Date: | 2015-02-11 |
License: | GPL-2 |
Very simple to use.
Use fit.DRWPClassGM
to train the classifier.
Use predict.DRWPClassGM
to predict the status of new samples.
Wei Liu, and Chunquan Li
Liu, W., et al., Topologically inferring risk-active pathways toward precise cancer classification by directed random walk. Bioinformatics, 2013. 29(17): p. 2169-77.
1 2 3 4 5 6 7 8 9 10 11 12 | data(GProf8511)
data(GProf3325)
data(MProf)
data(pathSet)
data(dGMGraph)
fit <- fit.DRWPClassGM(xG=GProf8511$mRNA_matrix, yG.class1=GProf8511$normal, yG.class2=GProf8511$PCA,
xM=MProf$Meta_matrix, yM.class1=MProf$normal, yM.class2=MProf$PCA, DEBUG=TRUE, pathSet=pathSet,
globalGraph=dGMGraph, testStatistic="t-test", classifier = "Logistic")
predict.DRWPClassGM(object=fit, newx=GProf3325$mRNA_matrix[,c(GProf3325$normal,GProf3325$PCA)],
type = "class")
evaluate.DRWPClassGM(object=fit, newx=GProf3325$mRNA_matrix, newy.class1=GProf3325$normal,
newy.class2=GProf3325$PCA)
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