get_final_signature: Identify the candidate prognosis-related pathways

In PMAPscore: Identify Prognosis-Related Pathways Altered by Somatic Mutation

Identify the candidate prognosis-related pathways

Description

The function 'get_final_signature' uses to identify the candidate prognosis-related pathways based on the PMAPscore.

Usage

get_final_signature(pfs_score, sur, wilcox_p = 0.05, uni_cox_p = 0.01)

Arguments

pfs_score	A 2 X n 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'.
sur	This data contains survival status and survival time of each sample.
wilcox_p	The threshold of p value for Wilcoxon rank-sum test.
uni_cox_p	The threshold of p value for univariate Cox regression analysis.

Value

Return the candidate prognosis-related pathways

Examples

#load the data.
data(pfs_score,sur)
#perform function `get_final_signature`.
final_signature<-get_final_signature(pfs_score,sur)

PMAPscore documentation built on April 12, 2022, 9:06 a.m.