Hi Dhaval
we resample all input images to 256^3 and 1mm isootropic unless we are explicitly told not to. We call this "conforming"
cheers Bruce
On Mon, 3 Apr 2017, Dhaval Shah wrote:
Just a correction,
The original image matrix size is (256x256x160) and the resulted image matrix size is (256x256x256).
On Mon, Apr 3, 2017 at 4:35 PM, Dhaval Shah dshah@bnac.net wrote: Hi All,
I am new and a very basic question about freesurfer processing.
I ran recon-all on a high res-T1 image(128x128x80 matrix size), but after recon-all the folder mri contains resulted (brain.mgz and orig.mgz) T1 images has (127x128x128 matrix size).
- how come the dimensions are changed? Is it normal?
- how can i keep the dimensions same as the original?
- is it possible that i will always get the higher matrix size image
data?
for simplicity, i converted resulted orig.mgz to nii format and loaded it in to fslview. Please find the first image (Original) and the second image (after recon-all but orig.mgz).
Your help is greatly appreciated.
-- Kind regards, Dhaval Shah
MRI Research fellow,MRI Physicist,Clinical Trial Research Staff Buffalo Neuroimaging Analysis Center State University of New York at Buffalo Department of Neurology 100 High St., D-2, Buffalo, NY 14203 dshah@bnac.net//http://mbl.bnac.net
-- Kind regards, Dhaval Shah
MRI Research fellow,MRI Physicist,Clinical Trial Research Staff Buffalo Neuroimaging Analysis Center State University of New York at Buffalo Department of Neurology 100 High St., D-2, Buffalo, NY 14203 dshah@bnac.net//http://mbl.bnac.net