Segmentation for eigenanatomy.

Segment a mask into regions based on the max value in an image list. At a given voxel the segmentation label will contain the index to the image that has the largest value. If the 3rd image has the greatest value, the segmentation label will be 3 at that voxel.

eigSeg(
  mask = NULL,
  imgList = NA,
  applySegmentationToImages = FALSE,
  cthresh = 0,
  smooth = 1
)

Arguments

mask

D-dimensional mask > 0 defining segmentation region.

imgList

list containing antsImages or a matrix matching the mask.

applySegmentationToImages

boolean determines if original image list is modified by the segmentation.

cthresh

throw away isolated clusters smaller than this value

smooth

smooth the input data first by this value

Value

segmentation image.

Author

Avants BB

Examples

mylist <- list(
  antsImageRead(getANTsRData("r16")),
  antsImageRead(getANTsRData("r27")),
  antsImageRead(getANTsRData("r85"))
)
mat <- imageListToMatrix(mylist, getMask(mylist[[1]]))
#> 
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myseg <- eigSeg(getMask(mylist[[1]]), mat)