Create Heatmap from Cell-Cell Proximity Score

cellProximityHeatmap()

Create heatmap from cell-cell proximity scores.

cellProximityHeatmap(
    gobject,
    CPscore,
    scale = T,
    order_cell_types = T,
    color_breaks = NULL,
    color_names = NULL,
    show_plot = NA,
    return_plot = NA,
    save_plot = NA,
    save_param = list(),
    default_save_name = "cellProximityHeatmap"
)

Arguments

gobject	giotto object
CPscore	CPscore, output from cellProximityEnrichment()
scale	scale cell-cell proximity interaction scores
order_cell_types	order cell types based on enrichment correlation
color_breaks	numerical vector of length 3 to represent min, mean and maximum
color_names	character color vector of length 3
show_plot	show plot
return_plot	return ggplot object
save_plot	directly save the plot [boolean]
save_param	list of saving parameters from all_plots_save_function
default_save_name	default save name for saving, don’t change, change save_name in save_param

Value

A ggplot heatmap.

Details

This function creates a heatmap that shows the spatial proximity enrichment or depletion of cell type pairs.