Perform Deconvolution

runSpatialDeconv()

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
)

Arguments

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

Value

A Giotto object or deconvolution results.