highMLR (version 0.1.1)

mlhighCox: mlhighCox

Description

This function extracts desired number of features based on minimum log-Loss function using Cox proportional hazard model as learner method on a high dimensional survival data.

Usage

mlhighCox(cols, idSurv, idEvent, per = 20, fold = 3, data)

Value

A dataframe containing desired number of features and the corresponding log Loss function.

Arguments

cols

A numeric vector of column numbers indicating the features for which the log Loss functions are to be computed

idSurv

The name of the survival time variable

idEvent

The name of the survival event variable

per

Percentage of total features to be selected, default value 20

fold

An integer denoting number of folds in cross validation, default value 3

data

A data frame that contains the survival and covariate information for the subjects

Author

Atanu Bhattacharjee, Gajendra K. Vishwakarma & Souvik Banerjee

Details

Performs feature Selection using Cox PH on high-dimensional data

Using the Cox proportional hazard model on the given survival data, this function selects the most significant feature based on a performance measure. The performance measure is considered as logarithmic loss function. It is defined as, $$L(f,t)=-log(f(t))$$. The features with minimum log-loss function are extracted.

References

Sonabend, R., Király, F. J., Bender, A., Bernd Bischl B. and Lang M. mlr3proba: An R Package for Machine Learning in Survival Analysis, 2021, Bioinformatics, <https://doi.org/10.1093/bioinformatics/btab039>

See Also

mlhighKap, mlhighFrail

Examples

if (FALSE) {
data(hnscc)
mlhighCox(cols=c(6:15), idSurv="OS", idEvent="Death", per=20, fold = 3, data=hnscc)
}