Build Reference — build_model_omnideconv • spacedeconv

Build Reference

Usage

build_model_omnideconv(
  single_cell_obj,
  cell_type_col = "cell_ontology_class",
  method = NULL,
  spatial_obj = NULL,
  batch_id_col = NULL,
  markers = NULL,
  assay_sc = "counts",
  assay_sp = "counts",
  ...
)

Arguments

single_cell_obj: SingleCellExperiment
cell_type_col: column containing cell type annotation
method: select deconvolution method
spatial_obj: SpatialExperiment
batch_id_col: column of single_cell_obj containing batch_ids
markers: List of marker genes, only used for bseqsc
assay_sc: single cell assay to use
assay_sp: spatial assay to use
...: additional parameters passed to the selected algorithm

Value

Gene Expression signature or NULL, if methods don't export signatures