Hi - see the slices and slicer programs.
Cheers.
On 24 Jul 2009, at 09:07, Chien-Han Lai wrote:
> Hi, dear all
> can anybody tell me how to display my FSLVBM results into a series
> of slices in a picture (like "slice overlay" function of SPM)?
> thank you
> CH Lai
>
> --- 09/7/24 (五),Steve Smith <[log in to unmask]> 寫道:
>
> 寄件者: Steve Smith <[log in to unmask]>
> 主旨: [FSL]
> 收件者: [log in to unmask]
> 日期: 2009年7月24日,五,下午1:54
>
> Hi - no, that's not quite right I'm afraid - I suggest you read the
> original TBSS paper in NeuroImage.
> The only thing that is seletonised is the group-mean-FA image, after
> an initial nonlinear reg of all subjects into standard space, and
> averaging.
> Then all subject's data is 'projected' onto the skeleton - see the
> paper for details.
> Cheers.
>
>
> On 23 Jul 2009, at 16:12, John Kuster wrote:
>
> > Thanks, Steve, that makes sense.
> >
> > I also have a question, in my current understanding, TBSS will
> > skeletonise
> > FA data and then align all the skeletons, this is one of the
> > advantages of
> > using TBSS, that it uses the skeletons to attain a better
> > registration.
> > However, this alignment is only applied to the skeletons, that is,
> NOT
> > applied to the full FA maps at any point. Am I correct in this?
> >
> > Thanks!
> >
> >
> > On 7/23/09 1:24 AM, "Steve Smith" <[log in to unmask]> wrote:
> >
> >> Er....because you didn't set any output options....you need to
> choose
> >> one or more of
> >> -T
> >> --T2
> >> -x
> >> -c
> >> etc.
> >> Cheers.
> >>
> >>
> >> On 22 Jul 2009, at 21:28, John Kuster wrote:
> >>
> >>> Dear FSLers,
> >>>
> >>> If anyone could tell me why I am getting an aborted command, I
> would
> >>> really appreciate it! I am not sure why it says no output options
> >>> selected,
> >>>
> >>> Thanks in advance,
> >>>
> >>> Jake
> >>>
> >>>
> >>> striatum:stats] (nmr-std-env) randomise -i all_FA_skeletonised -o
> >>> tbss_msk
> >>> -m mean_FA_skeleton_mask_ROI_masked -d design.mat -t design.con -n
> >>> 5000
> >>> randomise options: -i all_FA_skeletonised -o tbss_msk -m
> >>> mean_FA_skeleton_mask_ROI_masked -d design.mat -t design.con -n
> 5000
> >>> Loading Data: ***********************
> >>> Data loaded
> >>> 1.14407e+06 permutations required for exhaustive test of t-test 1
> >>> Doing 5000 random permutations
> >>> Warning! No output options selected. Outputing raw tstat only
> >>> Starting permutation 1 (Unpermuted data)
> >>> 1.14407e+06 permutations required for exhaustive test of t-test 2
> >>> Doing 5000 random permutations
> >>> Warning! No output options selected. Outputing raw tstat only
> >>> Starting permutation 1 (Unpermuted data)
> >>> Finished, exiting.
> >>>
> >>
> >>
> >>
> ---------------------------------------------------------------------------
> >> Stephen M. Smith, Professor of Biomedical Engineering
> >> Associate Director, Oxford University FMRIB Centre
> >>
> >> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
> >> +44 (0) 1865 222726 (fax 222717)
> >> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
> >>
> ---------------------------------------------------------------------------
> >>
> >>
> >
>
>
> ---------------------------------------------------------------------------
> Stephen M. Smith, Professor of Biomedical Engineering
> Associate Director, Oxford University FMRIB Centre
>
> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
> +44 (0) 1865 222726 (fax 222717)
> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
> ---------------------------------------------------------------------------
>
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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