R/15-data_visualization_plot_relationship_network.R
plot_relationship_network.Rd
This function plots a relationship network that includes functional modules, modules, pathways, and molecules.
plot_relationship_network(
object,
include_functional_modules = TRUE,
include_modules = TRUE,
include_pathways = TRUE,
include_molecules = TRUE,
functional_module_color = "#F05C3BFF",
module_color = "#46732EFF",
pathway_color = "#197EC0FF",
molecule_color = "#3B4992FF",
functional_module_text = TRUE,
module_text = TRUE,
pathway_text = TRUE,
molecule_text = FALSE,
functional_module_text_size = 3,
module_text_size = 3,
pathway_text_size = 3,
molecule_text_size = 3,
circular_plot = FALSE,
functional_module_arrange_position = TRUE,
module_arrange_position = TRUE,
pathway_arrange_position = TRUE,
molecule_arrange_position = TRUE,
functional_module_position_limits = c(0, 1),
module_position_limits = c(0, 1),
pathway_position_limits = c(0, 1),
molecule_position_limits = c(0, 1)
)
An object of class "functional_module".
Logical; include functional modules in the plot?
Logical; include modules in the plot?
Logical; include pathways in the plot?
Logical; include molecules in the plot?
Character; color for functional modules.
Character; color for modules.
Character; color for pathways.
Character; color for molecules.
Logical; include functional module text labels?
Logical; include module text labels?
Logical; include pathway text labels?
Logical; include molecule text labels?
Numeric; size of functional module text labels.
Numeric; size of module text labels.
Numeric; size of pathway text labels.
Numeric; size of molecule text labels.
Logical; make the plot circular?
Logical; should the position of functional modules be arranged?
Logical; should the position of modules be arranged?
Logical; should the position of pathways be arranged?
Logical; should the position of molecules be arranged?
Numeric vector; limits for functional module positions.
Numeric vector; limits for module positions.
Numeric vector; limits for pathway positions.
Numeric vector; limits for molecule positions.
A ggplot object representing the relationship network.