fcv-class function

class

The fcv Class.

Slots

• Runtime: A vector of runtime for each iteration measured in seconds.
• Fold: Number of folds used.
• Ncv: Number of outer cross validations used.
• Nicv: Number of inner cross validations used.
• TopK: The Top metabolites used
• HRInner: A 3-way array in which first, second, and third dimensions correspond to Nicv, 1, and Ncv respectively. This contains estimated HR for low risk group on the out of bag data.
• HRTest: A matrix of survival information for the test dataset based on the out of bag data. It has three columns representing the estimated HR, the 95% lower confidence interval and the 95% upper confidence interval.
• Weight: A matrix with columns equals number of TopK metabolites and rows Ncv. Note that Weights are estimated as colMeans of coefficients matrix return from the inner cross validations.

Examples

## GENERATE SOME METABOLIC SURVIVAL DATA WITH PROGNOSTIC FACTORS
Data<-MSData(nPatients=100,nMet=150,Prop=0.5)

## USE THE FUNCTION
Eg = Icvlasoel(Data$Survival, Data$Censor, Data$Prognostic,
t(Data$Mdata), Fold = 3,Ncv = 5, Nicv = 7, Alpha = 1,
TopK = colnames(Data$Mdata[,80:100]), Weights = FALSE)

## GET THE CLASS OF THE OBJECT
class(Eg)     # An "fcv" Class

##  METHOD THAT CAN BE USED FOR THIS CLASS
show(Eg)
summary(Eg)
plot(Eg, type =1)

See Also

CVLasoelacox, EstimateHR, glmnet, Lasoelacox

Author(s)

Olajumoke Evangelina Owokotomo, olajumoke.owokotomo@uhasselt.be

Ziv Shkedy