Plot an Ecological Network Organized by Trophic Level — plot_troph_level

This function visualizes a food web using ggplot2, where nodes represent species and edges represent interactions. Nodes are positioned by trophic level on the y-axis, and optionally, community modules on the x-axis.

Usage

plot_troph_level_ggplot(
  g,
  vertexSizeFactor = 5,
  vertexSizeMin = 5,
  modules = FALSE,
  weights = NA,
  node_weights = NA,
  community_obj = NULL,
  use_numbers = FALSE,
  label_size = 4,
  arrow_size = 0.15,
  shorten_factor = 0.005
)

Arguments

g: An igraph object representing the ecological network.
vertexSizeFactor: Numeric factor to scale node size (default: 5).
vertexSizeMin: Minimum node size (default: 5).
modules: Logical; if TRUE, nodes are grouped by community modules (default: FALSE).
weights: Edge weights for community detection (default: NA).
node_weights: Optional numeric vector for node weights. If NULL and the graph has a vertex attribute called weight, that attribute is used. If not, node degree is used as fallback.
community_obj: Optional community detection object.
use_numbers: Logical; if TRUE, label nodes by numeric ID (default: FALSE).
label_size: Label font size (default: 4).
arrow_size: Arrowhead size (default: 0.15).
shorten_factor: Factor to shorten edges for arrows (default: 0.005).

Value

A ggplot object visualizing the trophic structure of the network.