there are two commands in freesurfer for surface rotation and surface registration to volume.
mris_register_to_volume mris_rotate best Rouhi On Thu, Dec 6, 2012 at 4:32 PM, Donna Dierker <[email protected]>wrote: > To my knowledge, there is no "flipLR.sh" script that x-flips the volumes > and surfaces; updates the specs and scenes; etc. > > It is possible, but not simple, in my opinion. Fast is in the eye of the > beholder, but I'm guessing you could pull it off under a week, QA included. > > Reliable -- this is the real achilles heel. What is your script > forgetting to do? What did you forget to check? > > I haven't had to do this since 2004 or 2005, but I will spare you the "how > is this possible since NIFTI" sermon. You're in enough pain right now. I > could dig out scripts I have written before to do this, but the file > formats were older, and the details of your issue might call for different > solutions. > > The freesurfer folks might have something like this, and if they do, it's > probably written as a shell script. It might be useful if only as a > checklist/tool-jogger. > > > On Dec 6, 2012, at 9:07 AM, Matthew Ward <[email protected]> wrote: > > > I would be interested in an answer to this as well. Thanks! > > > > > > On Thu, Dec 6, 2012 at 4:38 AM, Colin Reveley <[email protected]> > wrote: > > I'm writing something up. > > > > It turns out that what appears in my MRI as the right hem is actually > the left. > > > > It turns out that matters. I have to flip it. > > > > Is there a way to flip an entire spec (actually loads of them) from > right to left (and left to right) > > > > ie apply a transform to an entire spec. all files, including volumes, > metrics everything. > > > > Or, maybe I should simply make images and flip those. that's definitely > best unless flipping a spec is simple and fast and reliable. > > > > there are scene files in some specs and vector files in some. presumably > those would be a problem. that is ok, although it would be nice to flip it > all. > > > > The data is all in a space. Caret knows about this space. in fact it is > "caret space". Can it be told just to invert an axis of this space, and > that is that, everything is magically and globally RL instead of LR? > > > > > > > > _______________________________________________ > > caret-users mailing list > > [email protected] > > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > > > > > > > > -- > > Matthew K Ward, Ph.D. > > Research Associate, Vision Sciences > > Center for the Development of Functional Imaging > > University of Alabama at Birmingham > > 205 975-4137 (office) > > 205 914-6288 (cell) > > [email protected] > > _______________________________________________ > > caret-users mailing list > > [email protected] > > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > _______________________________________________ > caret-users mailing list > [email protected] > http://brainvis.wustl.edu/mailman/listinfo/caret-users > -- Best Regards Rouhollah Abdollahi
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