Thanks for the quick reply. Can you elaborate a little bit how to use mri_vol2vol to get what I want? what would be the final scipt for tkmedit then?

On Tue, Mar 5, 2013 at 5:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:

Hi Natalie

sorry, tkmedit won't do what you want. It's old and we are not developing it anymore. You can apply the transform using mri_vol2vol, just make sure to use nearest nbr interp for the aseg.

cheers Bruce

On Tue, 5 Mar 2013, Natalie Han wrote:

Hi, all,

...

I have a tkmedit display issue when I try to add transformation to the main volume, but the segmentation volume won't conform to Talairach domain accordingly. Here is the commandline

tkmedit subject norm.mgz -main-transform talairach.xfm -seg aseg.mgz

really appreciate any feedback on how to add transformation on this segmentation results.

Thanks. Natalie

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Using mri_label2vol will work a little better than mri_vol2vol. doug

On 3/5/13 8:41 PM, Bruce Fischl wrote:

you'll have to look at the help. It's pretty extensive since Doug wrote it :) Then you can use freeview to visualize the transformed intensity and aseg volumes

cheers Bruce On Tue, 5 Mar 2013, Natalie Han wrote:

...

Thanks for the quick reply. Can you elaborate a little bit how to use mri_vol2vol to get what I want? what would be the final scipt for tkmedit then?

On Tue, Mar 5, 2013 at 5:31 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: Hi Natalie

  sorry, tkmedit won't do what you want. It's old and we are not
  developing it anymore. You can apply the transform using
  mri_vol2vol, just make sure to use nearest nbr interp for the
  aseg.

  cheers
  Bruce
  On Tue, 5 Mar 2013, Natalie Han wrote:

        Hi, all,
        I have a tkmedit display issue when I try to add
        transformation to the main
        volume, but the segmentation volume won't conform to
        Talairach domain
        accordingly. Here is the commandline

        tkmedit subject norm.mgz  -main-transform
        talairach.xfm -seg aseg.mgz

        really appreciate any feedback on how to add
        transformation on this
        segmentation results.

        Thanks.
        Natalie

The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.

---

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