coord_fssurface_to_fstalairach: Transform FreeSurfer surface space coordinates into MNI...

In dfsp-spirit/brainloc: Find Region Names and Coordinates for a Point on the Human Brain

Description

This uses the affine transform in <subject>/mri/transforms/talairach.xfm, be sure to know about the limitations of this approach. See the FreeSurfer documentation on talairach for details. The coordinates produced by this approach are referred to as 'MNI Talairach' coordinates in the FreeSurfer documentation, and are not identical to Talairach space.

Usage

coord_fssurface_to_fstalairach(subjects_dir, subject_id, surface_coords)

Arguments

subjects_dir	character string, the path to the recon-all SUBJECTS_DIR containing the data of all subjects of your study.
subject_id	character string, the subject identifier (i.e., the sub directory name under the subjects_dir). This can be a template like fsaverage, but it also works for other subjects.
surface_coords	nx3 numerical matrix of surface coordinates (vertex positions in FreeSurfer surface space).

Value

nx3 numerical matrix of MNI Talairach space coordinates.

Examples

## Not run: 
# Will lead to identity transform for fsaverage, so no change in coords.
sjd = fsbrain::fsaverage.path();
sj = "fsaverage";
surf = fsbrain::subject.surface(sjd, sj, hemi="lh", surface="orig");
tal = coord_fssurface_to_talairach(sjd, sj, surf$vertices);

## End(Not run)

dfsp-spirit/brainloc documentation built on Jan. 28, 2022, 12:25 p.m.