Compute Ligand-Receptor Scores per Spot — get_lr • spacedeconv

Calculates ligand-receptor scores for each spot using CPM-normalized expression and a ligand-receptor reference.

Usage

get_lr(spe, resource = "Consensus", method = "min", organism = "human")

Arguments

spe: SpatialExperiment with a cpm assay.
resource: L-R reference. Defaults to the Omnipath consensus; a custom data frame must include source_genesymbol and target_genesymbol.
method: Scoring method: "min" or "product".
organism: Organism: "human" or "mouse".