I redid the segmentation for the "bad" subject data and recalculated the
template with DARTEL and it worked.
On 14.07.2014 15:52, John Ashburner wrote:
> If the coregistration between structural and functional images are fine,
> and the spatial normalisation of the structural is fine, then I have no
> idea why the spatial normalisation of the functional images has not
> worked well. Did you do anything unusual to the data from this subject?
>
> Best regards,
> -John
>
>
>
>
> On 14 July 2014 14:40, Paul Glad Mihai <[log in to unmask]
> <mailto:[log in to unmask]>> wrote:
>
> Hi John,
>
> I checked segmentation and it seems to be fine (see attachment). I also
> attached a checkreg between original T1 and normalized T1. They seem to
> be off by a bit. What do you suggest? Should I reorient the original T1
> image closer to AC-PC?
>
> Regards,
> Glad
>
> On 14.07.2014 15:28, John Ashburner wrote:
> > It looks like a segmentation failure to me. I'd suggest taking a
> closer
> > look at the results of segmenting that subject, and maybe checking
> > whether the initial alignment of your structural scan with
> MNI-space is
> > within about 3cm and 15 degrees. Use CheckReg for this.
> >
> > Best regards,
> > -John
> >
> >
> >
> > On 14 July 2014 13:30, Paul Glad Mihai
> <[log in to unmask]
> <mailto:[log in to unmask]>
> > <mailto:[log in to unmask]
> <mailto:[log in to unmask]>>> wrote:
> >
> > Dear members of the SPM List,
> >
> > I followed these steps:
> >
> > 1. Realign & Unwarp EPIs
> > 2. Slice timing correction
> > 3. Coregistration of T1 to mean EPI
> > 4. New Segment and create DARTEL template of T1 images from
> all subjects
> > 5. Normalise all EPI to MNI
> > 6. Noramlise individual T1 images
> >
> > Everything works fine except for one subject, see attached
> image. The
> > image is normalized but somehow shifted. The coregistration
> worked fine,
> > as seen on the right side of the attachment.
> >
> > Can anybody give me a hint as to why this happens to this one
> subject
> > and not to any of the other ones? Can I maybe get this
> information from
> > the flow field by looking at it?
> >
> > Regards,
> > Glad
> > --
> > Glad MIHAI, M.Sc. Biomedical Physics
> > Functional Imaging | University Clinic Greifswald
> > Walther-Rathenau-Straße 46 | 17475 Greifswald | Germany
> > Tel: +49 3834 86 69 44 <tel:%2B49%203834%2086%2069%2044>
> <tel:%2B49%203834%2086%2069%2044> | Fax: +49
> > 3834 86 68 98 <tel:%2B49%203834%2086%2068%2098>
> > www.baltic-imaging-center.de
> <http://www.baltic-imaging-center.de>
> <http://www.baltic-imaging-center.de>
> >
> >
>
> --
> Glad MIHAI, M.Sc. Biomedical Physics
> Functional Imaging | University Clinic Greifswald
> Walther-Rathenau-Straße 46 | 17475 Greifswald | Germany
> Tel: +49 3834 86 69 44 <tel:%2B49%203834%2086%2069%2044> | Fax: +49
> 3834 86 68 98 <tel:%2B49%203834%2086%2068%2098>
> www.baltic-imaging-center.de <http://www.baltic-imaging-center.de>
>
>
--
Glad MIHAI, M.Sc. Biomedical Physics
Functional Imaging | University Clinic Greifswald
Walther-Rathenau-Straße 46 | 17475 Greifswald | Germany
Tel: +49 3834 86 69 44 | Fax: +49 3834 86 68 98
www.baltic-imaging-center.de
|