Function to perform deconvolution based on single cell expression data
runSpatialDeconv( gobject, deconv_method = c("DWLS"), expression_values = c("normalized"), logbase = 2, cluster_column = "leiden_clus", sign_matrix, n_cell = 50, cutoff = 2, name = NULL, return_gobject = TRUE )
| gobject | giotto object |
|---|---|
| deconv_method | method to use for deconvolution |
| expression_values | expression values to use |
| logbase | base used for log normalization |
| cluster_column | name of cluster column |
| sign_matrix | signature matrix for deconvolution |
| n_cell | number of cells per spot |
| cutoff | cut off (default = 2) |
| name | name to give to spatial deconvolution results |
| return_gobject | return giotto object |
giotto object or deconvolution results