> Date: Wed, 30 May 2012 23:18:38 -0500
> From: [log in to unmask]
> Subject: Re: [FSL] Fslswapdim problems for the ROIs created with freesurfer
> To: [log in to unmask]
>
> Giuseppe,
> Is it possible that your FreeSurfer created ROIs were not saved as
> NIFTI's, but rather as old Analyze format, which assumed a particular
> orientation or which code the orientation in an associated .mat file?
>
> cheers,
> -MH
>
> On Thu, 2012-05-31 at 04:05 +0000, Christine Zakrzewski wrote:
> > Sorry that i cannot provide any solutions from this description. Just
> > wanted to say good luck--may be a bitch to fix!!
> > One point you could bear in mind is that the information in
> > orientation field of your structural, t1 (nifti?) header provides the
> > template for the information contained in the header of your ROI.
> > Insure that everything has gone as it should in preprocessing
> > sequence, and check orientation field of ROI header--fslhd.
> > Christine
> >
> >
> > > Date: Wed, 30 May 2012 17:30:35 +0100
> > > From: [log in to unmask]
> > > Subject: [FSL] Fslswapdim problems for the ROIs created with
> > freesurfer
> > > To: [log in to unmask]
> > >
> > > Hi Experts,
> > > i have some problems in reorienting the ROIs that i have created
> > with freesurfer using fslswapdim. I did not have any problems in
> > reorienting the T1 of my subject but when i tried to use the same
> > sequence that i used for the T1 (e.g LR PA IS) the ROIs did never
> > change in the right way. I have tried every possible combination and
> > it did not seem to work, the LPFC for example it was always out of
> > place.
> > > I don't know if i was completely clear but any suggestions would be
> > very appreciated.
> > > Thanks a lot,
> > > Giuseppe
> >