Run non-negative matrix factorization — cluster_nmf • bulkMAE

Run non-negative matrix factorization

Usage

cluster_nmf(
  x,
  experiment,
  assay,
  rank,
  method = "brunet",
  runs = 30,
  seed = 1,
  ...
)

Arguments

x: A MultiAssayExperiment object.
experiment: Optional experiment name.
assay: Assay name or one-based assay index.
rank: Factorization rank or vector of candidate ranks.
method: NMF algorithm.
runs: Number of runs.
seed: Random seed or NMF seed method.
...: Additional arguments passed to NMF::nmf().

Value

A native NMF fit object.