Create pseudo bulk from single cell object — create_sc_pseudobulk • multideconv

Create pseudo bulk from single cell object

Usage

create_sc_pseudobulk(
  sc_obj,
  cells_labels,
  sample_labels,
  normalized = TRUE,
  file_name
)

Arguments

sc_obj: A Seurat single cell object
cells_labels: A character vector with the cell labels (need to be of the same order as in the sc_obj)
sample_labels: A character vector with the samples labels (need to be of the same order as in the sc_obj)
normalized: Whether pseudobulk should be or not TPM normalized
file_name: A string specifying the name of the .csv pseudobulk saved in Results/

Value

A gene count matrix (genes as rows and samples as columns)