simlr.search: Perform SIMLR Grid Search

In stnava/ANTsR: ANTs in R: Quantification Tools for Biomedical Images

Perform SIMLR Grid Search

Description

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

Usage

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'.

Value

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

stnava/ANTsR documentation built on April 13, 2025, 4:10 a.m.