Perform SIMLR Grid Search — simlr.search • ANTsR

This function performs a grid search over the parameter combinations provided by `options_df`.

simlr.search(
  mats,
  regs,
  options_df,
  maxits = 100,
  connectors = NULL,
  nperms = 1,
  verbose = 0,
  FUN = rvcoef
)

Arguments

mats: The input matrices for SIMLR.
regs: The regularization options for SIMLR.
options_df: A data frame of parameter combinations generated by `simlr.parameters`.
maxits: The maximum number of iterations for SIMLR. Default is 100.
connectors: a list ( length of projections or number of modalities ) that indicates which modalities should be paired with current modality
nperms: The number of permutations for the significance test. Default is 1.
verbose: The verbosity level. Default is 0.
FUN: The function to use for the SIMLR evaluation. Default is `rvcoef`.

A list containing the best SIMLR result, its significance, and the parameters.