Visualize Combined ICG Scores

plotCombineInteractionChangedGenes()

Create visualization for combined (pairwise) ICG scores.

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

Arguments

gobject	giotto object
combCpgObject	ICGscores, output from combineInteractionChangedGenes()
selected_interactions	interactions to show
selected_gene_to_gene	pairwise gene 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 genes 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

A ggplot.