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Plot ROIs on spatial.

Source: R/plotROI.R
plotROI.Rd

Plot ROIs on spatial.

Usage

plotROI(spe, id = "cell_type", show.legend = FALSE, ...)

Arguments

spe

A SpatialExperiment object.

id

Character. The name of the column of colData(spe) containing the cell type identifiers. Set to cell_type by default.

show.legend

Logical. Show legend or not.

...

Aesthetic mappings pass for point.

Value

A ggplot object.

Examples


data("xenium_bc_spe")

coi <- c("Breast cancer", "Fibroblasts")

spe <- gridDensity(spe, coi = coi)

spe <- findROI(spe, coi = coi, method = "walktrap", steps = 5)

plotROI(spe, pt.size = 0.3, pt.alpha = 0.2)