kellyKapowski: Compute cortical thickness using the DiReCT algorithm.

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

Description

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

Usage

kellyKapowski(
  s,
  g,
  w,
  its = 50,
  r = 0.025,
  m = 1.5,
  x = TRUE,
  e = FALSE,
  t = 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
t	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 )

neuroconductor/ANTsR documentation built on Oct. 11, 2020, 8:14 a.m.