Deconvolute CARD

Usage

deconvolute_card(
  single_cell_obj,
  spatial_obj,
  cell_type_col = "cell_ontology_class",
  assay_sc = "counts",
  assay_sp = "counts",
  batch_id_col = "orig.ident",
  result_name = "card"
)

Arguments

single_cell_obj: Single Cell Experiment
spatial_obj: Spatial Experiment
cell_type_col: column of SCE containing cell type information
assay_sc: assay of single_cell_obj to use
assay_sp: assay of spatial_obj to use
batch_id_col: batch id column in spatialExperiment
result_name: token to identify deconvolution results in object, default = "card"