plotCombineICF: plotCombineICF

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

plotCombineICF

Description

Create visualization for combined (pairwise) ICF scores

Usage

plotCombineICF(
  gobject,
  combIcfObject,
  selected_interactions = NULL,
  selected_feat_to_feat = NULL,
  detail_plot = T,
  simple_plot = F,
  simple_plot_facet = c("interaction", "feats"),
  facet_scales = "fixed",
  facet_ncol = length(selected_feat_to_feat),
  facet_nrow = length(selected_interactions),
  colors = c("#9932CC", "#FF8C00"),
  show_plot = NA,
  return_plot = NA,
  save_plot = NA,
  save_param = list(),
  default_save_name = "plotCombineICF"
)

Arguments

gobject	giotto object
combIcfObject	ICFscores, output from combineInteractionChangedFeats()
selected_interactions	interactions to show
selected_feat_to_feat	pairwise feature combinations to show
detail_plot	show detailed info in both interacting cell types
simple_plot	show a simplified plot
simple_plot_facet	facet on interactions or feats with simple plot
facet_scales	ggplot facet scales paramter
facet_ncol	ggplot facet ncol parameter
facet_nrow	ggplot facet nrow parameter
colors	vector with two colors to use
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
default_save_name	default save name for saving, don't change, change save_name in save_param

Value

ggplot

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.