plot_abundance_changes

Generates a plot to visualize changes in cell state abundances.

plot_abundance_changes(
  cell_state_graph,
  comp_abund_table,
  facet_group = NULL,
  scale_node = FALSE,
  plot_labels = TRUE,
  label_size = 3,
  node_size = 2,
  node_scale = 1,
  arrow_unit = 7,
  arrow_color = "darkgrey",
  legend_position = "right",
  group_label_size = 1,
  fc_limits = c(-3, 3)
)

Arguments

• cell_state_graph
  object
  A cell state graph containing the graph and layout info.

• comp_abund_table
  data.frame
  Comparison abundance table.

• facet_group
  character
  Optional column in comp_abund_table to facet the plot.

• scale_node
  logical
  Whether to scale nodes by significance.

• plot_labels
  logical
  Whether to label nodes in the plot.

• label_size
  numeric
  Font size of node labels. Default is 3.

• node_size
  numeric
  Base size of nodes.

• node_scale
  numeric
  Scaling factor for node sizes.

• arrow_unit
  numeric
  Size of arrows in the plot.

• arrow_color
  character
  Color of the connections between nodes. Default is "darkgrey".

• legend_position
  character
  Position of the legend.

• group_label_size
  numeric
  Font size for group labels. Default is 1.

• fc_limits
  numeric vector
  Length-2 vector for fold change color scale limits.

Value

A ggplot object representing the abundance changes.

Examples

# Example usage:
# plot_abundance_changes(cell_state_graph, comp_abund_table)