runDWLSDeconv#
Last Updated: Sep 07, 2023
Description#
Function to perform DWLS deconvolution based on single cell expression data
Usage#
runDWLSDeconv(
gobject,
spat_unit = NULL,
feat_type = NULL,
expression_values = c("normalized"),
logbase = 2,
cluster_column = "leiden_clus",
sign_matrix,
n_cell = 50,
cutoff = 2,
name = NULL,
return_gobject = TRUE
)
Arguments#
|
giotto object |
|
spatial unit |
|
feature type |
|
expression values to use |
|
base used for log normalization |
|
name of cluster column |
|
sig matrix for deconvolution |
|
number of cells per spot |
|
cut off (default = 2) |
|
name to give to spatial deconvolution results, default = DWLS |
|
return giotto object |
Value#
giotto object or deconvolution results
See Also#
https://github.com/dtsoucas/DWLS for the DWLS bulk deconvolution method, and doi:10.1186/s13059-021-02362-7 for spatialDWLS, the spatial implementation used here.