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).
>
> 1) how come the dimensions are changed? Is it normal?
> 2) how can i keep the dimensions same as the original?
> 3) 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
> MailScanner has detected a possible fraud attempt from "dshah@bnac.net" claiming to be 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
> MailScanner has detected a possible fraud attempt from "dshah@bnac.net" claiming to be dshah@bnac.net//http://mbl.bnac.net
>
>

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