deconvo_epic: Estimating immune microenvironment using EPIC: FOR RNAseq...
In IOBR/IOBR: Immune Oncology Biological Research

deconvo_epic

R Documentation

Estimating immune microenvironment using EPIC: FOR RNAseq mostly

Description

Estimating immune microenvironment using EPIC: FOR RNAseq mostly

Usage

deconvo_epic(eset, project = NULL, tumor)

Arguments

`eset`	expression set with genes at row, sample ID at column
`project`	project name used to distinguish different data sets
`tumor`	is input sample tumor or normal

Value

EPIC with immune cell fractions

Author(s)

Dongqiang Zeng

Examples

# Loading TCGA-STAD expresion data(raw count matrix)
data(eset_stad, package = "IOBR")
eset <- count2tpm(countMat = eset_stad, source = "local", idType = "ensembl")
epic_result<-deconvo_epic(eset = eset,project = "TCGA-STAD",tumor = TRUE)

IOBR/IOBR documentation built on April 4, 2024, 1:07 a.m.