Hi Sushravya,
I would actually need **all** the files concerning this subject (to be sure that you put all of them, do an ls *C_20090417_35938* in your FA/ directory).
Thanks,
Gwenaelle
--- En date de : Mer 27.5.09, Sushravya Raghunath <[log in to unmask]> a écrit :
> De: Sushravya Raghunath <[log in to unmask]>
> Objet: Re: [FSL] Re : [FSL] registered images distorted - tbss_3_postreg step
> À: [log in to unmask]
> Date: Mercredi 27 Mai 2009, 15h36
> Hi Gwenaelle,
>
> I have uploaded files as you had asked. Please find it
> at 986721.
>
> Thanks,
> Sushravya
>
>
>
> On Wed, May 27, 2009 at 5:41 AM,
> Gwenaëlle DOUAUD <[log in to unmask]>
> wrote:
>
> Hi Sushravya,
>
> sorry I was not clear enough: could you please put *all*
> the files and images corresponding to this
> "C_20090417_35938" subject (_FA.nii.gz,
> *_warp.nii.gz etc.) in a tgz file and upload it?
>
>
> Thanks,
>
> Gwenaelle
>
>
> --- En date de : Mar 26.5.09, Sushravya Raghunath <[log in to unmask]> a écrit :
>
>
> > De: Sushravya Raghunath <[log in to unmask]>
> > Objet: Re: [FSL] Re : [FSL] registered images
> distorted - tbss_3_postreg step
>
>
> > À: [log in to unmask]
> > Date: Mardi 26 Mai 2009, 21h24
>
> > Hi Gwenaelle,
> >
> > The commands used were tbss_2_reg -T and
> > tbss_3_postreg -S for tbss steps 2 and 3
> respectively.
> >
> >
> > Have uploaded an example. The reference number is
>
> > 129604.
> > Thanks for the reply. Awaiting suggestions.
> > Thanks,
> > Sushravya
> >
> >
> >
> >
> >
> > On Tue, May 26, 2009 at 2:54 PM,
>
> > Gwenaëlle DOUAUD <[log in to unmask]>
>
>
>
> > wrote:
> >
> > Hi Sushravya,
> >
> > by no mean a flirt (or any affine) registration would
> be
> > enough to match the WM across the subjects, especially
> if
> > you're dealing with healthy elderly and MCI
> patients!
>
> >
> >
> > What you might have found in the archives is that
> flirt is
> > working better than areg (present in an old version of
> TBSS)
> > for placing the best target into the MNI space... This
> is
> > obsolete now (we only use flirt and fnirt) and is not
> valid
>
> > if you have used the tbss2 -T recommended option
> anyway.
> >
> >
> > What are the commands/option you're run exactly
> for
> > tbss2 and 3? Could you please maybe upload (http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi)
>
> > an example of one FA_to_target that has failed?
> >
> >
> > Cheers,
> > Gwenaelle
> >
> > --- En date de : Mar 26.5.09, Sushravya Raghunath
> <[log in to unmask]> a écrit :
>
> >
> >
> > > De: Sushravya Raghunath <[log in to unmask]>
> > > Objet: [FSL] registered images distorted -
>
> > tbss_3_postreg step
> >
> > > À: [log in to unmask]
> > > Date: Mardi 26 Mai 2009, 19h34
> >
> >
> >
> > > Experts,
> > >
> > > I am running TBSS Analysis of Control versus MCI
>
> > human
> > > subjects.
> > >
> > > The _FA_to_target.nii.gz images (resulting after
> > > tbss_3_postreg step) are
> >
> > > distorted. In some cases the regsitered images
> have
>
> > > truncated edges whereas
> > > FA image is complete.
> > >
> > > I read in older posts that FLIRT registration
> might
> > be
> > > better and registered the
> >
> > > FA image to MNI152_T1_1mm_brain usifn FLIRT. The
>
> > FLIRT
> > > registered images
> > > look better. The truncated edges are still seen
> with
> > FLIRT
> > > registration but they
> > > are better than tbss registered images.
> >
>
> > >
> > > Is this the right way of going about in such
> > situation?
> > >
> > > If yes, how can I have FLIRT registration done
> in
> > > tbss_3_postreg step?
> > >
> > > Any suggestion would be helpful.
>
> > >
> >
> > > Thanks,
> > > Sushravya
> > >
> >
> >
> >
> >
> >
> >
>
>
>
>
>
>
|