Description Usage Arguments Examples
LASSO step for pathway selection. To identify patient subgroups based on pathway level risk profile, we fit a LASSO-Penalized Cox regression on scores derived from all the pathways.
1 2 | ## S4 method for signature 'FitGene'
selectPath(object, seed = 123)
|
object |
results of selectGene step |
seed |
random seed that was set, default = 123. |
1 2 3 4 5 6 | data(TCGA)
geneRegroup.result=geneRegroup(plist=TCGA$pathList )
prefilter.results=prefilter( data=TCGA$geneexpr, time=TCGA$t, status=TCGA$d,
plist=geneRegroup.result@gset )
gene.results=selectGene( object=prefilter.results, fold=5, K=5, etas=c(0.1,0.9),seed=123)
path.results=selectPath( object=gene.results, seed=123)
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