Create a coloredmesh from an annotation of an atlas.

Create a coloredmesh from an annotation of an atlas.

Usage

coloredmesh.from.annot(
  subjects_dir,
  subject_id,
  atlas,
  hemi,
  surface = "white",
  outline = FALSE
)

Arguments

subjects_dir

string. The FreeSurfer SUBJECTS_DIR, i.e., a directory containing the data for all your subjects, each in a subdir named after the subject identifier.

subject_id

string. The subject identifier.

atlas

string or a loaded annotation. If a string, interpreted as the atlas name that should be loaded to get te annotation. E.g., "aparc", "aparc.2009s", or "aparc.DKTatlas". Used to construct the name of the annotation file to be loaded.

hemi

string, one of 'lh' or 'rh'. The hemisphere name. Used to construct the names of the label data files to be loaded.

surface

character string or fs.surface instance. The display surface. E.g., "white", "pial", or "inflated". Defaults to "white".

outline

logical, whether to draw an outline only instead of filling the regions. Defaults to FALSE. Only makes sense if you did not pass an outline already. The current implementation for outline computation is rather slow, so setting this to TRUE will considerably increase computation time.

Value

coloredmesh. A named list with entries: "mesh" the tmesh3d mesh object. "col": the mesh colors. "render", logical, whether to render the mesh. "hemi": the hemisphere, one of 'lh' or 'rh'.

See also

Other coloredmesh functions: coloredmesh.from.label(), coloredmesh.from.mask(), coloredmesh.from.morph.native(), coloredmesh.from.morph.standard(), coloredmesh.from.morphdata(), coloredmeshes.from.color()