`cellProximityHeatmap`¶

cellProximityHeatmap

Description¶

Create heatmap from cell-cell proximity scores

Usage¶

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¶

Argument	Description
`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` <#allplotssavefunction>`_
`default_save_name`	default save name for saving, don’t change, change save_name in save_param

Details¶

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

Value¶

ggplot heatmap