simlrU: Compute the low-dimensional u matrix for simlr

In neuroconductor-devel/ANTsR: ANTs in R: Quantification Tools for Biomedical Images

Compute the low-dimensional u matrix for simlr

Description

simlr minimizes reconstruction error across related modalities. One crucial component of the reconstruction is the low-dimensional cross-modality basis. This function computes that basis, given a mixing algorithm.

Usage

simlrU(
  projections,
  mixingAlgorithm,
  initialW,
  orthogonalize = FALSE,
  connectors = NULL
)

Arguments

projections	A list that contains the low-dimensional projections.
mixingAlgorithm	the elected mixing algorithm. see simlr. can be 'svd', 'ica', 'rrpca-l', 'rrpca-s', 'pca', 'stochastic' or 'avg'.
initialW	initialization matrix size n by k for fastICA.
orthogonalize	boolean
connectors	a list ( length of projections or number of modalities ) that indicates which modalities should be paired with current modality

Value

u matrix for modality i

Author(s)

BB Avants.

See Also

simlr

Examples

set.seed(1500)
nsub <- 25
npix <- c(100, 200, 133)
nk <- 5
outcome <- matrix(rnorm(nsub * nk), ncol = nk)
outcome1 <- matrix(rnorm(nsub * nk), ncol = nk)
outcome2 <- matrix(rnorm(nsub * nk), ncol = nk)
u <- simlrU(list(outcome, outcome1, outcome2), 2, "avg")

neuroconductor-devel/ANTsR documentation built on July 3, 2025, 10:41 p.m.