`runSpatialDeconv`¶

runSpatialDeconv

Description¶

Function to perform deconvolution based on single cell expression data

Usage¶

runSpatialDeconv(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  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¶

Argument	Description
`gobject`	giotto object
`spat_unit`	spatial unit
`feat_type`	feature type
`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¶

giotto object or deconvolution results

Seealso¶

``runDWLSDeconv` <#rundwlsdeconv>`_