[Freesurfer] merging rh and lh surfaces

Hi, I would like to have a single surf file that composed of both right and left pial surf. Is there a way to do it in freesurfer? Best. seok -- Seok Lew, Ph.D. Athinoula A. Martinos Center for Biomedical Imaging Massachusetts General Hospital Building 149, 13th Street, Mailcode 149-2301 Charl

RE: [Freesurfer] merging rh and lh surfaces

Hi Bruce, I am trying to create a volume conductor of human brain for FEM based source reconstruction. A nice surface of full pial (and other compartments like WM) layer is supposed to generate 3D FEM mesh by means of a meshing tool. Cheers, Seok > can you tell us why you want such a thing? I ha

[Freesurfer] removing background

Hi, I want to remove the background 0 in the segmented volume like aseg.mgz, and saved the volume without the background. What is the simplest way to do it? Best, Seok -- Seok Lew, Ph.D. Athinoula A. Martinos Center for Biomedical Imaging Massachusetts General Hospital Building 149, 13th Street

Re: [Freesurfer] removing background

Hi, My previous question seems misleading. Here is what I want to do. I have a labeled volume by mri_watershed, which classifies 6 tissue types and an exterior (i.e. background). I want to have a labeled volume without the exterior. Thanks, Seok > If you mean save the screenshot to an image

[Freesurfer] mrI_watershed volume segmentation

Hi, I used mri_watershed to get volume segmenstation with -LABEL option. mri_watershed -atlas -LABEL $SUBJECTS_DIR/test/mri/T1.mgz $SUBJECTS_DIR/test/tmp/ What coordinate system is used for the segmented volume ? The coordinate seems a lot different from that of the surface extraction with SRAS.