iES_surv: iES calculation Function

In suke18/iPath: iPath pipeline for detecting perturbed pathways at individual level

Description

This function allows to investigate on one specific pathway.

Usage

iES_surv(iES_mat, cli, indVec = NULL, npatsThre = 5)

Arguments

iES_mat	is iES matrix with rows corresponding to the pathway and columns corresponding to the patients.
cli	clinical data associated to the gene expression data.
indVec	binary vector indicating normal (0) and tumor (1).
npatsThre	the threshold of number of patients for survival analysis.

Value

a matrix of survival analysis from coxph.

Examples

data(PRAD_data)
data(GSDB_example)
iES_mat = iES_cal2(prad_exprs, GSDB = GSDB_example)
iES_surv(iES_mat, cli = prad_cli, indVec = prad_inds)

suke18/iPath documentation built on July 23, 2021, 1:08 p.m.