plot_network_graph: Plot network graph.

In quadbiolab/Pando: Inferring regulomes from multi-modal single-cell genomics data

Plot network graph.

Description

Plot network graph.

Usage

plot_network_graph(object, ...)

## S3 method for class 'GRNData'
plot_network_graph(
  object,
  network = DefaultNetwork(object),
  graph = "module_graph",
  layout = "umap",
  edge_width = 0.2,
  edge_color = c(`-1` = "darkgrey", `1` = "orange"),
  node_color = pals::magma(100),
  node_size = c(1, 5),
  text_size = 10,
  color_nodes = TRUE,
  label_nodes = TRUE,
  color_edges = TRUE
)

Arguments

object	An object.
network	Name of the network to use.
graph	Name of the graph.
layout	Layout for the graph. Can be 'umap' or any force-directed layout implemented in ggraph
edge_width	Edge width.
edge_color	Edge color.
node_color	Node color or color gradient.
node_size	Node size range.
text_size	Font size for labels.
color_nodes	Logical, Whether to color nodes by centrality.
label_nodes	Logical, Whether to label nodes with gene name.
color_edges	Logical, Whether to color edges by direction.

Value

A GRNData object.

quadbiolab/Pando documentation built on April 22, 2024, 8:14 a.m.