compute_snns: Include SNN graphs to multiSVD
In linnykos/multiomicCCA: Tilted CCA

compute_snns

R Documentation

Include SNN graphs to multiSVD

Computing and including the shared nearest-neighbor (SNN) graphs for each modality and the target common manifold for an existing multiSVD object

compute_snns(
  input_obj,
  latent_k,
  num_neigh,
  bool_cosine = T,
  bool_intersect = T,
  min_deg = 1,
  tol = 1e-04,
  verbose = 0
)

`input_obj`	`multiSVD` class, after creation via `create_multiSVD()` or `form_metacells()`
`latent_k`	number of latent dimensions for the graph Laplacian bases
`num_neigh`	number of neighbors for each cell, when constructing the SNN graphs
`bool_cosine`	boolean, for using cosine distance if `T` or Euclidean distance if `F`
`bool_intersect`	boolean, on whether or not to symmetrize (via the AND function) the SNN
`min_deg`	minimum degree of each cell in the SNN
`tol`	small positive number
`verbose`	non-negative integer