Convenience: compute diffusion coordinates from an adjacency matrix — compute_diffusion_coordinates_from_adjacency • manifoldalign

Convenience: compute diffusion coordinates from an adjacency matrix

Usage

compute_diffusion_coordinates_from_adjacency(
  A,
  k_embed = 30L,
  time = 1,
  use_normalized_laplacian = TRUE,
  store_basis = FALSE,
  ...
)

Arguments

A: Square adjacency/affinity matrix (dense or sparse).
k_embed: Number of eigenpairs used for the basis.
time: Positive scalar or vector of times.
use_normalized_laplacian: Logical; use the normalized Laplacian (default TRUE).
store_basis: Logical; if TRUE, return `list(coords=, basis=)`.
...: Passed to [compute_diffusion_coordinates()].

Value

A numeric matrix (n x k) or list of matrices, or a list when `store_basis=TRUE`.