cellProximityBarplot

Create barplot from cell-cell proximity scores

cellProximityBarplot(
  gobject,
  CPscore,
  min_orig_ints = 5,
  min_sim_ints = 5,
  p_val = 0.05,
  show_plot = NA,
  return_plot = NA,
  save_plot = NA,
  save_param = list(),
  default_save_name = "cellProximityBarplot"
)

Arguments

gobject

giotto object

CPscore

CPscore, output from cellProximityEnrichment()

min_orig_ints

filter on minimum original cell-cell interactions

min_sim_ints

filter on minimum simulated cell-cell interactions

p_val

p-value

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

ggplot barplot

Details

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