gene2cellsummary: gene2cellsummary

In SMDIC: Identification of Somatic Mutation-Driven Immune Cells

gene2cellsummary

Description

Function 'gene2cellsummary' is a generic function used to produce result summaries of the immune cells driven by a somatic mutation.

Usage

gene2cellsummary(gene, method = "xCell", mutcell)

Arguments

gene	Somatic mutant gene name
method	Method must be one of "xCell","ssGSEA" and "CIBERSORT".
mutcell	The result of 'mutcorcell' funtion.

Value

A matrix shows the short name, full name, pvalue, fdr, cell responses(up or down) of the cells driven by a somatic mutation.

Examples

# get the result of `mutcorcell` funtion.
mutcell<-GetExampleData("mutcell")

# perform the function gene2cellsummary
genecellsummary<-gene2cellsummary(gene="TP53",mutcell=mutcell)

SMDIC documentation built on Aug. 29, 2023, 5:11 p.m.