deconvolute_epic

a m x n matrix with m genes and n samples

gene_expression_matrix

Set to TRUE if working with tumor data. Will choose the <code>TRef</code>
signature matrix in that case, <code>BRef</code> otherwise (through EPIC's <code>reference</code> parameter)

tumor

Set to FALSE to disable correction for cell type-specific differences
in mRNA content (through EPIC's <code>mRNA_cell</code> parameter)

scale_mrna

passed through to EPIC. A native argument takes precedence
over an immunedeconv argument (e.g. <code>ref</code> takes precedence over <code>tumor</code>)
See <a href="/link/EPIC?package=immunedeconv&version=2.0.0" data-mini-rdoc="immunedeconv::EPIC">EPIC</a>

Collection of methods for immune cell deconvolution from bulk RNA-seq samples

Gregor Sturm

immunedeconv

Methods for immune cell deconvolution

deconvolute_epic function

passed through to EPIC. A native argument takes precedence
over an immunedeconv argument (e.g. <code>ref</code> takes precedence over <code>tumor</code>)
See <a href='https://rdrr.io/github/GfellerLab/EPIC/man/EPIC.html'>EPIC</a>

deconvolute_epic: Deconvolute using EPIC

Description

Usage

Arguments