Build the diffusion kernel — build

Constructs the graph Laplacian and runs the spectral decomposition, then applies the chosen kernel transform. The result is stored as an external pointer for subsequent calls to diffuse().

Usage

build_kernel(
  object,
  kernel = c("regularised_laplacian", "commute_time", "diffusion", "inverse_cosine",
    "pstep"),
  kernel_params = params_kernel(),
  normalised = TRUE,
  strategy = "truncated",
  k = 100L,
  .verbose = TRUE
)

Arguments

object: A DiffusionScores object, see DiffusionScores().
kernel: Character. One of "regularised_laplacian", "commute_time", "diffusion", "inverse_cosine", "pstep". Defaults to "regularised_laplacian".
kernel_params: Named list. Kernel-specific parameters, see params_kernel().
normalised: Logical. Use the normalised Laplacian. Defaults to TRUE.
strategy: Character. "full" or "truncated". Defaults to "truncated".
k: Integer. Number of eigenvalues for the truncated strategy. Ignored if strategy = "full". Defaults to 100L.
.verbose: Logical. Controls verbosity. Defaults to TRUE.

Value

The DiffusionScores object with kernel_pointer and params populated.