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Generate Synthetic Differential Graph Data

differential_graph_test_data.Rd

Creates a pair of graphs with known topological differences to verify context-aware differential embedding analysis. The two graphs share a common backbone but differ in defined regions:

  • Community 1 is a stable negative control, identical across both graphs.

  • Community 2 contains a hub node demoted to a peripheral node in graph 2.

  • Two bridge nodes span communities 2 and 3 in graph 1 but are fully embedded within community 3 in graph 2.

  • A set of exclusive nodes appears in only one graph.

Usage

differential_graph_test_data(
  n_stable = 50L,
  n_comm2 = 50L,
  n_comm3 = 50L,
  n_exclusive = 5L
)

Arguments

n_stable

Integer. Number of nodes in the stable negative-control community.

n_comm2

Integer. Number of regular nodes in community 2, excluding the hub.

n_comm3

Integer. Number of nodes in community 3, excluding bridge nodes.

n_exclusive

Integer. Number of exclusive nodes per graph.

Value

A named list containing:

  • g1_edges - data.table with columns from, to for graph 1.

  • g1_nodes - data.table with columns node, cluster for graph 1.

  • g2_edges - data.table with columns from, to for graph 2.

  • g2_nodes - data.table with columns node, cluster for graph 2.

  • data_info - data.table with columns node, is_differential, node_status ("shared", "g1_only", "g2_only").