Hey, all
Whether the FS only segment the white matter volume (WM - mri/wm) by default . How about the GM? If I want to get GM volume, is it a right way to use brain.mgz to subtract the wm.mgz?
Best Wishes,
Hi Meng,
no, we usually provide gray matter volumes, thicknesses and surface areas using the surfaces (although we do explicitly provide a voxel labeling in the aseg.mgz). It should all be reported in the various files in the stats dir.
cheers Bruce On Mon, 1 Feb 2010, leemon albert wrote:
Hey, all
Whether the FS only segment the white matter volume (WM - mri/wm) by default . How about the GM? If I want to get GM volume, is it a right way to use brain.mgz to subtract the wm.mgz?
Best Wishes,
Hey, thanks for your prompt reply.
One more question, in subject/mri folder, only the Orig.mgz and T1.mgz adjust the AC-PC alignment of the image to be closer to MNI orientation. Because after the step of skullstrip, all volume use another origin. Is it right?
On Mon, Feb 1, 2010 at 10:35 AM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Meng,
no, we usually provide gray matter volumes, thicknesses and surface areas using the surfaces (although we do explicitly provide a voxel labeling in the aseg.mgz). It should all be reported in the various files in the stats dir.
cheers Bruce
On Mon, 1 Feb 2010, leemon albert wrote:
Hey, all
Whether the FS only segment the white matter volume (WM - mri/wm) by default . How about the GM? If I want to get GM volume, is it a right way to use brain.mgz to subtract the wm.mgz?
Best Wishes,
actually none of them are transformed to MNI coords. They are all in original (scanner) coords
On Mon, 1 Feb 2010, leemon albert wrote:
Hey, thanks for your prompt reply.
One more question, in subject/mri folder, only the Orig.mgz and T1.mgz adjust the AC-PC alignment of the image to be closer to MNI orientation. Because after the step of skullstrip, all volume use another origin. Is it right?
On Mon, Feb 1, 2010 at 10:35 AM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Meng,
no, we usually provide gray matter volumes, thicknesses and surface areas using the surfaces (although we do explicitly provide a voxel labeling in the aseg.mgz). It should all be reported in the various files in the stats dir.
cheers Bruce
On Mon, 1 Feb 2010, leemon albert wrote:
Hey, all
Whether the FS only segment the white matter volume (WM - mri/wm) by default . How about the GM? If I want to get GM volume, is it a right way to use brain.mgz to subtract the wm.mgz?
Best Wishes,
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
leemon albert