get_Entrez_ID: Convert gene symbol to Entrez_Gene_ID

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

Convert gene symbol to Entrez_Gene_ID

Description

The function 'get_Entrez_ID' is used to convert gene symbol to Entrez_Gene_ID

Usage

get_Entrez_ID(mut_status, gene_symbol_Entrez, Entrez_ID = TRUE)

Arguments

mut_status	A binary matrix that contains the mutation state of genes in each sample and its row name is the gene symbol. Noted the matrix can be generated by the function 'get_mut_status'.
gene_symbol_Entrez	A data table containing gene symbol and the corresponding gene Entrez ID.
Entrez_ID	Logical,tell whether there are Entrez IDs corresponding to gene symbol in the gene_symbol_Entrez.

Value

A binary matrix that contains the mutation state of genes in each sample and its row name is Entrez_Gene_ID.

Examples

#load the data.
data(mut_status,gene_symbol_Entrez)
#perform function `get_Entrez_ID`.
mut_status<-get_Entrez_ID(mut_status,gene_symbol_Entrez,Entrez_ID=TRUE)

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