deconvo_epic: Deconvolve Immune Microenvironment Using EPIC
In IOBR: Immune Oncology Biological Research

deconvo_epic

R Documentation

Deconvolve Immune Microenvironment Using EPIC

Description

Estimates immune cell fractions using EPIC algorithm.

Usage

deconvo_epic(eset, project = NULL, tumor = TRUE)

Arguments

`eset`	Gene expression matrix with genes as row names.
`project`	Optional project name. Default is 'NULL'.
`tumor`	Logical indicating tumor ('TRUE') or normal ('FALSE') samples.

Value

Data frame with EPIC cell fraction estimates. Columns suffixed with '_EPIC'.

Author(s)

Dongqiang Zeng

Examples

## Not run: 
TRef <- load_data("TRef")
if (!is.null(TRef)) {
  set.seed(123)
  sim_eset <- matrix(rnorm(nrow(TRef$refProfiles) * 2), nrow(TRef$refProfiles), 2)
  rownames(sim_eset) <- rownames(TRef$refProfiles)
  colnames(sim_eset) <- paste0("Sample", 1:2)
  result <- deconvo_epic(eset = sim_eset, project = "Example", tumor = TRUE)
  if (!is.null(result)) head(result)
}

## End(Not run)

IOBR documentation built on May 30, 2026, 5:07 p.m.