Hi there,
I just finished creating a surface (with lots of time consuming manual editing) for someone who just informed me that he got the right-left orientation wrong on the volume I was given, and that it needs to be reversed (grrrrr....) Is there any way to do this in FreeSurfer without having to redo the surfaces?
Thanks again, Peggy
Hi Peggy,
I think mris_reverse will do the trick.
cheers, Bruce On Wed, 18 May 2005, peggy christidis wrote:
Hi there,
I just finished creating a surface (with lots of time consuming manual editing) for someone who just informed me that he got the right-left orientation wrong on the volume I was given, and that it needs to be reversed (grrrrr....) Is there any way to do this in FreeSurfer without having to redo the surfaces?
Thanks again, Peggy _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Peggy:
I think mris_reverse will do the trick.
But one cautionary note... I think when I investigated this there is a minor problem.
The job of mris_reverse is to flip the sign of the RL coordinate on each of the vertices, and also to change the order of the vertices in the sets of three points that make up each triangle (because order of the three points is used to indicate "inside" and "outside" the brain).
If you wish to have your flipped surfaces viewable in conjunction with your original COR volume you might be tempted to flip the input volume also (using for example AFNI or some other MRI software).
However, 0,0,0 in the coordinate system used by FreeSurfer is not in the center of the COR volume, it's off by half a voxel. Ie: in the L-R direction, the center of a COR image (ie: between the two middle pixels) is at R = 0.5 mm. [*]
The net result will be that the flipped surfaces will misregister with the flipped MRI volume by one voxel RL (ie: half + half).
For some users this is no concern at all, for others its a problem.
More details at:
http://wideman-one.com/gw/brain/fs/coords/fscoords.htm
Graham
[*] Subject to the usual possibility of getting off-the-top-of-the-head details wrong in emails.
Is mris_reverse in the latest distribution? I can't seem to find it and I read somewhere in the mail archives that it had been removed because of the problem Graham mentioned.
what kind of machine (os and hardware) are you running on? We'll send you a version.
On Wed, 18 May 2005, peggy christidis wrote:
Is mris_reverse in the latest distribution? I can't seem to find it and I read somewhere in the mail archives that it had been removed because of the problem Graham mentioned. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi all,
I am looking a way to do the fMRI data interpolation and normalization. I have some data sets in different time domain. The longest one is 79 minutes and the shortest one is 30 minutes. We would like to normalizer all those data sets into 45 minutes long. Is any command we can try? Any source code for us as a reference?
Thank you in advance,
Lucy
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Graham Wideman -
peggy christidis -
Wei Qiu