deconvolute_dcq: Deconvolute using DCQ

In grst/immunedeconv: Methods for immune cell deconvolution

Deconvolute using DCQ

Description

Cell types obtained with this method can be further reduced with the map_result_to_celltypes function, using 'DCQ' as the method

Usage

deconvolute_dcq(
  gene_expression_matrix,
  ref_samples = NULL,
  n_repeats = 10,
  combine_cells = TRUE,
  ...
)

Arguments

gene_expression_matrix	a m x n matrix with m genes and n samples
ref_samples	a vector containing the names of the samples to be used to standardize the expressions. If NULL, all the samples are used.
n_repeats	the number of models to generate. Predicted cell quantities will then be averaged.
combine_cells	logical. This method estimates several cell types (~200). If TRUE (default), these are combined into 19 major immune-stromal cell types.
...	passed through to original quantiseq method. A native argument takes precedence over an immunedeconv argument

grst/immunedeconv documentation built on Nov. 10, 2023, 1:33 a.m.