get_risk_score {PMAPscore}

Calculates the risk score for patients

Description

The function 'get_risk_score' uses to calculate the risk score for patients based on cancer-specific dysregulated signaling pathways.

Usage

get_risk_score(
  final_signature,
  pfs_score,
  path_Ucox_mul_res,
  sur,
  TRAIN = TRUE
)

Arguments

final_signature

Cancer-specific dysregulated signal pathways. It can be generated by the function 'get_final_signature'.

pfs_score

A matrix that contains the pfs_score in each sample of the signal pathways. Noted the matrix can be generated by the function 'get_pfs_score'.

path_Ucox_mul_res

Results of multivariate Cox regression of cancer specific pathway in training set.

sur

This data contains survival status and survival time of each sample.

TRAIN

Logical,if set FLASE,we need to load the result of multivariate Cox regression of cancer specific pathways into the training set.

Value

A data set with the risk score for each sample.

Examples

#Load the data.
data(final_signature,pfs_score,sur,path_Ucox_mul_res)
#perform the function `get_risk_score`.
km_data<-get_risk_score(final_signature,pfs_score,path_Ucox_mul_res,sur,TRAIN=TRUE)