Fill image holes with dilation then erosion

Source: R/dil_ero.R

This function calls mean_image to dilate an image, then calls it again to erode it.

dil_ero(
  file,
  outfile = NULL,
  nvoxels = 3,
  zeropad = TRUE,
  remove.ends = FALSE,
  tol = .Machine$double.eps^0.5,
  refill = TRUE,
  retimg = FALSE,
  reorient = FALSE,
  intern = TRUE,
  verbose = TRUE,
  ...
)

Arguments

file

(character) filename of image to be filled
outfile

(character) name of resultant filled file
nvoxels

(integer) Number of voxels to smooth over, creates vxvxv box.
zeropad

(logical) Perform zero_pad before running.
remove.ends

(logical) Remove top and bottom dilation.
tol

(double) Tolerance for thresholding after fft.
refill

(logical) Run fslfill after dilation/erosion.
retimg

(logical) return image of class nifti
reorient

(logical) If retimg, should file be reoriented when read in? Passed to readNIfTI.
intern

(logical) pass to system
verbose

(logical) print out command before running
...

additional arguments passed to readNIfTI.

Value

character or logical depending on intern

Note

This function binarizes the image before running.