generates a reference profile based on single-cell data. Learns a transformation of bulk expression based on observed single-cell proportions and performs NNLS regression on these transformed values to estimate cell proportions.
deconvolute_dwls(
bulk_gene_expression,
signature,
dwls_submethod = c("DampenedWLS", "OLS", "SVR"),
verbose = FALSE
)An Expression Set containing bulk data.
The Signature matrix.
Three alternative methods in DWLS: OLS, SVR, and DampenedWLS.
Whether to produce an output on the console.
A matrix of cell type proportion estimates with cell types as rows and individuals as columns.