GiottoVisuals contains the main plotting functions of Giotto Suite

You can install GiottoVisuals like:

if (!requireNamespace("pak", quietly = TRUE)) install.packages("pak")
pak::pak("drieslab/GiottoVisuals")

aux_ - auxilliary and meta functionality

• aux_output.R - plot output handling
• aux_save.R - plot saving
• aux_defaults.R - set plotting defaults
• aux_visuals.R - general auxilliary plotting functions

plot_ - general plotting functions organized by type of plot

• plot_scatter.R - scatter plots
• plot_violin.R - violin plots
• plot_heatmap.R - heatmaps
• plot_dendrogram.R - dendrograms

vis_ - specific plotting functions organized by topic - vis_hvf.R - highly variable features plots

• vis_pc.R - principle components plots
• vis_spatial.R - - vis_spatial_in_situ.R -

gg_ - ggplot2 related

• gg_info_layers.R - modular internals for plotting the different layers of information
• ``

Other:

• color_palettes.R - color palettes and factory functions

• vis_spatialDE.R -

Package:

• package_imports.R - all imports
• globals.R - global variables
• dd.R - dummy documentation for inheriting
• zzz.R - onloads