kellyKapowski: Compute cortical thickness using the DiReCT algorithm.

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

Compute cortical thickness using the DiReCT algorithm.

Description

Diffeomorphic registration-based cortical thickness based on probabilistic segmentation of an image. This is an optimization algorithm.

Usage

kellyKapowski(
  s,
  g,
  w,
  its = 45,
  r = 0.025,
  m = 1.5,
  x = FALSE,
  e = FALSE,
  q = NULL,
  timeSigma = 1,
  verbose = FALSE,
  ...
)

Arguments

s	segmentation image
g	gray matter probability image
w	white matter probability image
its	convergence params - controls iterations
r	gradient descent update parameter
m	gradient field smoothing parameter
x	matrix-based smoothing
e	restrict deformation boolean
q	time spacing, a vector equal to the number of time dimensions
timeSigma	a scalar sigma value for distances between time points
verbose	boolean
...	anything else, see KK help in ANTs

Value

thickness antsImage

Author(s)

Shrinidhi KL, Avants BB

Examples

img <- antsImageRead(getANTsRData("r16"), 2)
img <- resampleImage(img, c(64, 64), 1, 0)
mask <- getMask(img)
segs <- kmeansSegmentation(img, k = 3, kmask = mask)
thk <- kellyKapowski(
  s = segs$segmentation, g = segs$probabilityimages[[2]],
  w = segs$probabilityimages[[3]], its = 45, r = 0.5, m = 1
)

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