joinEigenanatomy: Simple joinEigenanatomy function.

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

Simple joinEigenanatomy function.

Description

joinEigenanatomy joins the input matrix using a community membership approach.

Usage

joinEigenanatomy(
  datamatrix,
  mask = NULL,
  listEanatImages,
  graphdensity = 0.65,
  joinMethod = "walktrap",
  verbose = F
)

Arguments

datamatrix	input matrix before decomposition
mask	mask used to create datamatrix
listEanatImages	list containing pointers to eanat images
graphdensity	target graph density or densities to search over
joinMethod	see igraph's community detection
verbose	bool

Value

return(list(fusedlist = newelist, fusedproj = myproj, memberships = communitymembership , graph=gg, bestdensity=graphdensity ))

Author(s)

Avants BB

Examples

## Not run: 
# if you dont have images
mat <- replicate(100, rnorm(20))
mydecom <- sparseDecom(mat)
kk <- joinEigenanatomy(mat, mask = NULL, mydecom$eigenanatomyimages, 0.1)
# or select optimal parameter from a list
kk <- joinEigenanatomy(mat, mask = NULL, mydecom$eigenanatomyimages, c(1:10) / 50)
# something similar may be done with images
mask <- as.antsImage(t(as.matrix(array(rep(1, ncol(mat)), ncol(mat)))))
mydecom <- sparseDecom(mat, inmask = mask)
eanatimages <- matrixToImages(mydecom$eigenanatomyimages, mask)
kki <- joinEigenanatomy(mat, mask = mask, eanatimages, 0.1)
if (usePkg("igraph")) {
  mydecomf <- sparseDecom(mat,
    inmask = mask, initializationList = kki$fusedlist,
    sparseness = 0, nvecs = length(kki$fusedlist)
  )
}

## End(Not run)

stnava/ANTsR documentation built on April 16, 2024, 12:17 a.m.