Hi Bruce,

Thank you for the quick response. it is really highly appreciated!

I have 3D mask in the form of nifti file and it has the shape of large square( the black big square in my figure). I wanted to divid it to a smaller and equale volumes. It iseems that mri_extract can support my objectives:

Please how can I use this command. I was unable to find any instructions:

If my 3D maks is "mask.nii" and the command is mri_extract <src_dir> x0 y0 z0 dx dy dz <dst_dir> how can I use the command properly?

<src_dir>: is this where my file is located?

x0 y0 z0 dx dy dz: What I should use here?

Thank you very much for your help

John

Sent: Wednesday, June 08, 2016 at 9:13 AM
From: "Bruce Fischl" <fischl@nmr.mgh.harvard.edu>
To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Break 3D volume

Hi John

I'm not exactly sure what you mean, but you can use mri_extract to pull
out rectangular subvolumes.

cheers
Bruce
On Wed, 8 Jun 2016, John Anderson wrote:

> Dear FS Experts,
> Are there any tools in Freesurfer or Matlab scripts that can help to break
> down a 3D volume ( created using mri_volsynth) to a multiple equal sub
> volumes ( like the attached figure )
> Thanks in a dvance for any suggestion!
> John Anderson
>
> Senior Research Associate
> Psychological and Brain Sciences Dept.
> Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755
> Phone: +1 (603) 646-9834
> Fax: +1 (603) 646-1419
>
>
>
> [IMAGE]
>
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