Build Model Spatial DWLS

Usage

build_model_spatial_dwls(
  single_cell_obj,
  assay_sc = "counts",
  marker_method = "scran",
  topNgenes = 100,
  cell_type_col = "cell_ontology_class",
  dim_method = "pca",
  cluster_method = "leiden",
  ...
)

Arguments

single_cell_obj: SingleCellExperiment
assay_sc: Single Cell Object assay to use
marker_method: provide list of marker genes or method to calculate markers (scran, gini, mast)
topNgenes: Number of top ranked marker genes to use from each cluster
cell_type_col: column of single_cell_obj containing cell type information
dim_method: dimension reduction method
cluster_method: cluster method to use when calculating marker genes
...: additional paramdataters