compute_mixing_score — compute_mixing

Returns the mixing score between a reference marker and a target marker. The mixing score is defined by: the number of target-reference interactions/number of reference-reference interactions within a specified radius.

compute_mixing_score(sce_object, reference_marker, target_marker, radius = 20)

Arguments

sce_object	SingleCellExperiment object in the form of the output of format_image_to_sce
reference_marker	String specifying the reference marker
target_marker	String specifying the target marker
radius	Integer specifying the radius. Only cells within this radius will be considered.

Value

A single number is returned

Examples

compute_mixing_score(SPIAT::formatted_image, reference_marker = "CD4", target_marker = "CD8")
#> [1] "Number of reference cells: 513"
#> [1] "Number of target cells: 138"
#> [1] "Number of reference-target interactions: 67"
#> [1] "Number of reference-reference interactions: 412"
#> [1] 0.1626214