plotRecovery

plotRecovery

Description

Plots recovery plot to compare ligand-receptor rankings from spatial and expression information

Usage

plotRecovery(
  gobject,
  combCC,
  expr_rnk_column = "exprPI_rnk",
  spat_rnk_column = "spatPI_rnk",
  ground_truth = c("spatial", "expression"),
  show_plot = NA,
  return_plot = NA,
  save_plot = NA,
  save_param = list(),
  default_save_name = "plotRecovery"
)

Arguments

Argument

Description

gobject

giotto object

combCC

combined communinication scores from ``combCCcom` <#combcccom>`_

expr_rnk_column

column with expression rank information to use

spat_rnk_column

column with spatial rank information to use

ground_truth

what to consider as ground truth (default: spatial)

show_plot

show plots

return_plot

return plotting 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

Value

ggplot