Create a coloredmesh from standard space morphometry data.
coloredmesh.from.morph.standard(subjects_dir, subject_id, measure, hemi,
fwhm, surface = "white", template_subject = "fsaverage",
template_subjects_dir = NULL, colormap = squash::jet, clip = NULL)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.
string. The subject identifier.
string. The morphometry data to use. E.g., 'area' or 'thickness.'
string, one of 'lh' or 'rh'. The hemisphere name. Used to construct the names of the label data files to be loaded.
string, smoothing setting. The smoothing part of the filename, typically something like '0', '5', '10', ..., or '25'.
string. The display surface. E.g., "white", "pial", or "inflated". Defaults to "white".
The template subject used. This will be used as part of the filename, and its surfaces are loaded for data visualization. Defaults to 'fsaverage'.
The template subjects dir. If NULL, the value of the parameter 'subjects_dir' is used. Defaults to NULL. If you have FreeSurfer installed and configured, and are using the standard fsaverage subject, try passing the result of calling 'file.path(Sys.getenv('FREESURFER_HOME'), 'subjects')'.
a colormap function. See the squash package for some colormaps. Defaults to [squash::jet].
numeric vector of length 2 or NULL. If given, the 2 values are interpreted as lower and upper percentiles, and the morph data is clipped at the given lower and upper percentile (see [fsbrain::clip.data]). Defaults to NULL (no data clipping).
coloredmesh. A named list with entries: "mesh" the [rgl::tmesh3d] mesh object. "col": the mesh colors. "morph_data_was_all_na", logical. Whether the mesh values were all NA, and thus replaced by the all_nan_backup_value. "hemi": the hemisphere, one of 'lh' or 'rh'.