Hi Dinesh,
the best thing is to load your 4D all_FA image together with the mean_FA in FSLview. If you point at the parts of the brain that are missing in mean_FA and go through all your FA images, you'll be able to see which ones contribute to the restricted mask.
Cheers,
Gwenaelle
--- En date de : Lun 23.2.09, Dinesh K. Shukla <[log in to unmask]> a écrit :
> De: Dinesh K. Shukla <[log in to unmask]>
> Objet: Re: [FSL] Re : [FSL] tbss_2_reg problem
> À: [log in to unmask]
> Date: Lundi 23 Février 2009, 5h01
> Hi Gwenaëlle,
>
> Thanks for your feedback.
>
> Actually when I looked the FA maps in the
> "slicedir", they all look fine.
> So, how can I identify the one which is causing the
> trouble?
>
> Thanks again. I appreciate your help.
>
> Regards,
> Dinesh
>
>
> > Hi Dinesh,
> >
> > presumably nothing went wrong...
> > In the new version of TBSS, FA and skeletonised images
> are masked by the
> > *intersection* of all your FA images. In other words,
> this new
> > pre-processing prevents you from doing statistical
> analysis with some data
> > missing. If some parts of the brain are missing in
> your study, it means
> > that at least one of your images does not contain
> these parts of the
> > brain.
> > If this is only one suject that reduces considerably
> the spatial extent of
> > your analysis, then you should probably remove it from
> your study.
> >
> > Hope this helps,
> > Gwenaëlle
> >
> >
> > --- En date de : Dim 22.2.09, Dinesh K. Shukla
> <[log in to unmask]>
> > a écrit :
> >
> >> De: Dinesh K. Shukla
> <[log in to unmask]>
> >> Objet: [FSL] tbss_2_reg problem
> >> À: [log in to unmask]
> >> Date: Dimanche 22 Février 2009, 7h07
> >> Dear FSL users,
> >>
> >> The "all_FA" and other images in the
> >> "stats" directory after
> "tbss_2_reg"
> >> (with option -T) contain only part of the brain.
> Can
> >> somebody please help
> >> me figuring out what went wrong!
> >>
> >> Thank you so much.
> >>
> >> Regards,
> >> Dinesh
> >
> >
> >
> >
> >
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