Build Model SPOTlight

Build Model SPOTlight

Usage

build_model_spotlight(
  single_cell_obj,
  cell_type_col = "cell_ontology_class",
  spatial_obj,
  assay_sc = "counts",
  assay_sp = "counts",
  markers = NULL
)

Arguments

single_cell_obj

SingleCellExperiment

cell_type_col

Column where cell type information can be found

spatial_obj

SpatialExperiment

assay_sc

single cell assay to use

assay_sp

spatial assay to use

markers

(Optional) Marker Gene DataFrame, if NULL markers will be calculated from 'single_cell_obj' based on the authors suggestion