FSL ROI

Source: R/fslroi.R

This function calls fslroi

fslroi(
  file,
  xmin = 0,
  xsize = -1,
  ymin = 0,
  ysize = -1,
  zmin = 0,
  zsize = -1,
  tmin = NULL,
  tsize = NULL,
  outfile = NULL,
  retimg = TRUE,
  reorient = FALSE,
  intern = FALSE,
  verbose = TRUE,
  ...
)

fsl_roi(..., outfile = tempfile(fileext = ".nii.gz"), retimg = FALSE)

fslroi_time(file, tmin = NULL, tsize = NULL, ...)

Arguments

file

(character) image to be manipulated
xmin

Minimum index for x-dimension
xsize

Size of ROI in x-dimension
ymin

Minimum index for y-dimension
ysize

Size of ROI in y-dimension
zmin

Minimum index for z-dimension
zsize

Size of ROI in z-dimension
tmin

Minimum index for t-dimension
tsize

Size of ROI in t-dimension
outfile

(character) resultant image name (optional)
retimg

(logical) return image of class nifti
reorient

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

(logical) to be passed to system
verbose

(logical) print out command before running
...

additional arguments passed to readnii.

Value

If retimg then object of class nifti. Otherwise, Result from system command, depends if intern is TRUE or FALSE.

Note

Indexing (in both time and space) starts with 0 not 1! Inputting -1 for a size will set it to the full image extent for that dimension.