I can do that, but that only chages their names. I still have the right hemisphere where the left should be. The only real difference is that now the rigth is called left and the left is called right. But the orientation of the image is still the same.... 2007/9/6, Pedro Paulo Oliveira Jr ppj@netfilter.com.br:

I think you can:

rename the lh.* files to xx.*

rename the rh.* files to lh.*

rename the xx.* files to rh.*

*From:* freesurfer-bounces@nmr.mgh.harvard.edu [mailto: freesurfer-bounces@nmr.mgh.harvard.edu] *On Behalf Of *Inês Souta *Sent:* quinta-feira, 6 de setembro de 2007 12:22 *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] Switch hemispheres

Hi,

After processing the hole image I realized that the orientation of the original .mgz file was wrong and I've ended up with switched hemispheres. The right hemisphere is where the left should be, and vice-versa. Otherwise the orientation is right. Since I've already made manual edits, is the anyway of switching hemispheres without having to re-process the hole image again?

Thanks,

Ines

And how exactly do I use mri_convert to change switch left/right?

2007/9/8, Bruce Fischl fischl@nmr.mgh.harvard.edu:

I think think that will quite work. You can use mri_convert to left/right swap all the volumes then rerun the surface generation I guess (autorecon2-wm and autorecon3 I think would do it)

On Thu, 6 Sep 2007, Pedro Paulo Oliveira Jr wrote:

...

I think you can:

rename the lh.* files to xx.*

rename the rh.* files to lh.*

rename the xx.* files to rh.*

From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Inês Souta Sent: quinta-feira, 6 de setembro de 2007 12:22 To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Switch hemispheres

Hi,

After processing the hole image I realized that the orientation of the original .mgz file was wrong and I've ended up with switched

hemispheres.

...

The right hemisphere is where the left should be, and vice-versa.

Otherwise

...

the orientation is right. Since I've already made manual edits, is the anyway of switching hemispheres without having to re-process the hole

image

...

again?

Thanks,

Ines

Hi,

If your subject was simply left-right reversed there are directions here on how to fix it: https://surfer.nmr.mgh.harvard.edu/fswiki/LeftRightReversal

It might be a good idea to make a copy and flip that one, no need to mess up your subject by mistake. Be careful with Left/Right reversal, you really only want to do it if you are really sure it's backwards!

Jenni

-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl Sent: Sunday, September 09, 2007 11:46 AM To: Inês Souta Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Switch hemispheres

sorry, I can't remember exactly. You'll have to play with switches like -iid, -ijd, -ikd and -oid, -ojd, -okd, unless someone else remembers explicitly

On Sun, 9 Sep 2007, Inês Souta wrote:

And how exactly do I use mri_convert to change switch left/right?

2007/9/8, Bruce Fischl fischl@nmr.mgh.harvard.edu:

...

I think think that will quite work. You can use mri_convert to left/right swap all the volumes then rerun the surface generation I guess (autorecon2-wm and autorecon3 I think would do it)

On Thu, 6 Sep 2007, Pedro Paulo Oliveira Jr wrote:

...

I think you can:

rename the lh.* files to xx.*

rename the rh.* files to lh.*

rename the xx.* files to rh.*

From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Inês Souta Sent: quinta-feira, 6 de setembro de 2007 12:22 To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Switch hemispheres

Hi,

After processing the hole image I realized that the orientation of the original .mgz file was wrong and I've ended up with switched

hemispheres.

...

The right hemisphere is where the left should be, and vice-versa.

Otherwise

...

the orientation is right. Since I've already made manual edits, is the anyway of switching hemispheres without having to re-process the hole

image

...

again?

Thanks,

Ines