graph_clone_nn — graph_clone

Compute Clone-to-Clone Nearest Neighbor Distances on a Cell Graph

Usage

graph_clone_nn(
  graph,
  cell_clone_prob,
  prob_thresh = 0.1,
  k = 2,
  verbose = FALSE
)

Arguments

graph: An `igraph` object representing the cell-cell distance graph.
cell_clone_prob: A numeric matrix of clone membership probabilities (cells × clones).
prob_thresh: Threshold for binarizing clone assignment probabilities (default: 0.1).
verbose: Logical. Whether to print progress during processing (default: FALSE).
nn_k: Integer. Number of nearest neighbors to select for each clone comparison (default: 2).

Value

A data frame with columns `group1`, `group2`, and `dis` indicating the NN distance between clones.

Details

Calculates clone-level nearest neighbor distances based on a shared cell-cell graph. Uses binarized clone membership to find inter-clone distances, and applies a greedy k-nearest neighbor approximation.