Sums the counts of all the cells of each sample, producing one bulk-like expression profile per sample.
Usage
create_sc_pseudobulk(
sc_obj,
cells_labels = NULL,
sample_labels,
normalized = TRUE,
file_name = "Pseudobulk",
return = TRUE
)Arguments
- sc_obj
A Seurat single cell object
- cells_labels
Not used (kept so existing calls keep working). The pseudobulk is aggregated per sample only.
- sample_labels
Name of the metadata column with the sample labels.
- normalized
Whether pseudobulk should be or not TPM normalized
- file_name
A string specifying the name of the .csv pseudobulk saved in Results/
- return
Whether to save or not the csv file with the pseudobulk in Results/