Performs deconvolution with Scaden — deconvolute_scaden • omnideconv

Performs deconvolution with Scaden

deconvolute_scaden(
  signature,
  bulk_gene_expression,
  temp_dir = NULL,
  verbose = FALSE
)

Arguments

signature: Path to the model directory
bulk_gene_expression: A matrix of bulk data. Rows are genes, columns are samples. Row and column names need to be set.
temp_dir: The temporary directory to use for the computations (optional)
verbose: Whether to produce an output on the console (default: false).

Value

A matrix of cell type proportion estimates with cell types as rows and individuals as columns.