Re-register an annotation file — mri_surf2surf

Annotation files are subject specific. Most are registered for fsaverage, but we recommend using fsaverage5 for the mesh plots in ggseg3d, as these contain a decent balance in number of vertices for detailed rendering and speed.

Usage

mri_surf2surf_rereg(
  subject,
  annot,
  hemi = c("lh", "rh"),
  target_subject = "fsaverage5",
  output_dir = file.path(fs_subj_dir(), subject, "label"),
  verbose = get_verbose()
)

Arguments

subject: subject the original annotation file is registered to
annot: annotation file name (as found in subjects_dir)
hemi: hemisphere (one of "lh" or "rh")
target_subject: subject to re-register the annotation (default fsaverage5)
output_dir: Directory to store intermediate files (screenshots, masks, contours). Defaults to tempdir().
verbose: Verbosity level: 0 (silent), 1 (standard progress, default), or 2 (debug, includes FreeSurfer output). Logical values are accepted (TRUE = 1, FALSE = 0). If not specified, uses the value from options("ggseg.extra.verbose") or the GGSEG_EXTRA_VERBOSE environment variable.

Value

nothing

Examples

if (FALSE) { # \dontrun{
# For help see:
freesurfer::fs_help("mri_surf2surf")

mri_surf2surf_rereg(
  subject = "bert",
  annot = "aparc.DKTatlas",
  target_subject = "fsaverage5"
)
} # }