Standard MRI Preprocessing

Source: R/smri_preproc.R

This function performs robust skull stripping on the T1, then preprocessing within visit

smri_preproc(
  files,
  window = FALSE,
  outfiles = NULL,
  maskfile = NULL,
  correct = TRUE,
  correction = "N4",
  correct_after_mask = TRUE,
  verbose = TRUE,
  ...
)

Arguments

files

filenames (or nifti objects) of images to be processed. Will register to the first scan
window

Should robust_window before running?
outfiles

(character) name of output files, with extension
maskfile

Filename (or nifti object) of mask for image to be registered to
correct

do Bias field correction
correction

(character) N3 or N4 correction?
correct_after_mask

Should the inhomogeneity correction be run after masking.
verbose

Diagnostic messages
...

arguments to preprocess_mri_within

Value

List from preprocess_mri_within