Hi,
We don't have an easy interface to the deformable surfaces code at the
moment.
I will see if we can put something into the patch for that, but cannot
promise anything.
All the best,
Mark
On 16 Mar 2009, at 17:31, Jayanth Kolar wrote:
> Hi Steve,
>
> The simple averaging scheme did not yield good results. Looks like I
> have to go the hard way and work with mesh representations to find
> the average shape from the segmentations.
>
> The FIRST website says that
> "The manual labels are parameterized as surface meshes and modelled
> as a point distribution model. Deformable surfaces are used to
> automatically parameterize the volumetric labels in terms of meshes;
> the deformable surfaces are constrained to preserve vertex
> correspondence across the training data."
>
> This is exactly what I want. I have a set of volumetric labels which
> I want to parameterize and find the average volumetric label. How
> can I go about this ? Also I hear there is going to be a new patch
> for FIRST. Are there any plans for new tools to be updated to
> FIRST_UTILS which can perform this function?
>
> Thanks for your help.
>
> Thanks,
> Jayanth.
>
> On Thu, Mar 12, 2009 at 5:08 AM, Steve Smith <[log in to unmask]>
> wrote:
> Hi,
>
>
> On 11 Mar 2009, at 18:37, Jayanth Kolar wrote:
>
> Hi All,
>
> I have a set of 3D binary masks of segmented ventricles and I would
> like to generate an average mask from the set of 4 masks.Basically I
> want to create parametric mesh surfaces from the segmented ventricle
> masks and average corresponding points.
>
> I believe that of the two possible routes here one is easy and one
> hard - it would be easy to take the 3D image volumes of the masks,
> transform them into a standard space (if they're not already) and
> average-then-re-threshold using fslmaths. The hard way is to work
> with the mesh representations instead, for which I think you would
> probably need to get inside the source code to do this kind of thing
> - Brian/MJ can correct me if I'm wrong.
>
> Cheers, Steve.
>
>
>
>
> Is there a way I can do it for such arbitrary labeled volumes and
> obtain point correspondences using FSL-FIRST or any other tool ?
>
> Thanks for your time and thanks for the great tool. We have started
> using it for almost everything !
>
> Regards,
> Jayanth.
>
> --
> Jayanth Kolar
> Graduate Research Assistant
> Physiological Imaging and Modeling Lab
> University of Illinois at Chicago
> Chicago IL - 60607
> 1-408-398-0097
> http://www.ece.uic.edu/~jkolar
>
>
> ---------------------------------------------------------------------------
> 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
> ---------------------------------------------------------------------------
>
>
>
> --
> Jayanth Kolar
> Graduate Research Assistant
> Physiological Imaging and Modeling Lab
> University of Illinois at Chicago
> Chicago IL - 60607
> 1-408-398-0097
> http://www.ece.uic.edu/~jkolar
|