[ITK] [ITK-users] Open surface mesh construction from feature map

[Wei Liu]

Dženan, thanks for the reply. I have no experience in mesh generation or
surface construction, so I try to use filters in ITK/VTK.

vtkDelaunay3D seems for closed surface. Do you know any filter for open
surface?

>From your email it seems straightforward to generate mesh given point
clouds with normal vectors. I don't trust my own implementation, but I'll
give it a try if I couldn't find any filters. Do you know any papers, or
example implementations, either inside or outside of ITK community?

Thanks again,

On Tue, Sep 6, 2016 at 9:17 AM, Dženan Zukić <dzenanz at gmail.com> wrote:

> Hi Wei,
>
> you should calculate the peak of your probability so you have "thin" layer
> of voxels representing your surface. Coupled with the knowledge of the
> normal, it would then be only the matter of determining connectivity for
> the voxels to generate triangles of the mesh. And yes, you should use VTK
> for mesh storage and later filtering (such as smoothing).
>
> You could look at Canny filter
> <https://itk.org/Doxygen/html/classitk_1_1CannyEdgeDetectionImageFilter.html>'s
> source code for an example in ITK of how to do thinning.
>
> HTH,
> Dženan
>
> On Mon, Sep 5, 2016 at 5:25 PM, Wei Liu <weiliu620 at gmail.com> wrote:
>
>> Hi ITK users,
>>
>> I'm trying to detect (possibly multiple) open surface in a 3D volume.
>> Suppose I have a filter that give me a 3D feature map (e.g. the probability
>> of each voxel being on the surface), where should I go from this feature
>> map to construct smooth open surfaces?
>>
>> I did some search. It seems most of existing examples construct
>> isosurface mesh from a binary volume (or distance map from it). The binary
>> volume usually has a closed surface on the object boundary, so it is
>> different from my problem of open surface.
>>
>> I can probably calculate the normal of the surface at each voxel, if that
>> helps.
>>
>> I guess I should do some skeleton extraction and get a 'thin' set of
>> voxels on the surface, and use some filters in ITK or VTK(new to VTK but
>> willing to learn if necessary) to convert binary volumes to surface meshes,
>> and do some smoothing, filling holes etc.
>>
>> Thanks!
>>
>>
>>
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