plotCombineCellProximityGenes¶
plotCombineCellProximityGenes
Description¶
Create visualization for combined (pairwise) ICG scores
Usage¶
plotCombineCellProximityGenes(...)
Arguments¶
Argument |
Description |
|---|---|
|
Arguments passed on to ``plotCombineInteractionChangedGenes` <#plotcombineinteractionchangedgenes>`_ list(“n”, ” “, list(list(list(“gobject”)), list(“giotto object”)), “n”, ” “, list(list(list(“combCpgObject”)), list(“ICGscores, output from combineInteractionChangedGenes()”)), “n”, ” “, list(list(list(“selected_interactions”)), list(“interactions to show”)), “n”, ” “, list(list(list(“selected_gene_to_gene”)), list(“pairwise gene combinations to show”)), “n”, ” “, list(list(list(“detail_plot”)), list(“show detailed info in both interacting cell types”)), “n”, ” “, list(list( |
list("simple_plot")), list("show a simplified plot")), "\n", " ", list(list(list("simple_plot_facet")), list("facet on interactions or genes with simple plot")), "\n", " ", list(list(list("facet_scales")), list("ggplot facet scales paramter")), "\n", " ", list(list(list("facet_ncol")), list("ggplot facet ncol parameter")), "\n", " ", list(list(list("facet_nrow")), list("ggplot facet nrow parameter")), "\n", " ", list(list(list("colors")), list("vector with two colors to use")),
"\n", " ", list(list(list("show_plot")), list("show plots")), "\n", " ", list(list(list("return_plot")), list("return plotting object")), "\n", " ", list(list(list("save_plot")), list("directly save the plot [boolean]")), "\n", " ", list(list(list("save_param")), list("list of saving parameters from ", list(list("all_plots_save_function")))), "\n", " ", list(list(list("default_save_name")), list("default save name for saving, don't change, change save_name in save_param")), "\n",
" ")
Seealso¶
``plotCombineInteractionChangedGenes` <#plotcombineinteractionchangedgenes>`_