Identify tumor-stroma interface — SpaCET.identify.interface • SpaCET

Identify the spots at the tumor-stroma interface.

Usage

SpaCET.identify.interface(
  SpaCET_obj,
  Malignant = "Malignant",
  MalignantCutoff = 0.5
)

Arguments

SpaCET_obj: An SpaCET object.
Malignant: Indicates the name of malignant cell type in the major lineage layer from the deconvolution results. Default: "Malignant".
MalignantCutoff: Malignant cell fraction cutoff for tumor boundary. Default: 0.5.

Value

An SpaCET object.

Examples

SpaCET_obj <- SpaCET.identify.interface(SpaCET_obj)
SpaCET.visualize.spatialFeature(SpaCET_obj, spatialType = "Interface")