[ITK-users] [ITK] Merge N slices

[Andras Lasso]

Volume reconstruction from arbitrarily oriented slices is not a trivial problem. It has a large literature but only a very few open-source implementations.

One implementation is in the Plus toolkit (www.plustoolkit.org). It is fairly fast and supports clipping, hole filling (there are almost always holes between the slices), automatic output volume extent computation, etc. You can download the installation package and run the VolumeReconstructor command-line tool to build a volume from slices. Detailed description and sample data are available here:
http://perk-software.cs.queensu.ca/plus/doc/nightly/user/ApplicationVolumeReconstructor.html

You can also link PlusLib into your own project and call volume reconstructor algorithm from there. See for example how the algorithm is used in the VolumeReconstructor:
https://www.assembla.com/spaces/plus/subversion/source/HEAD/trunk/PlusLib/src/VolumeReconstruction/Testing/VolumeReconstructor.cxx

Andras


-----Original Message-----
From: Community [mailto:community-bounces at itk.org] On Behalf Of Arnaud Gelas
Sent: December 3, 2015 8:30 AM
To: dominik.hofer at gmail.com
Cc: insight-users at itk.org
Subject: Re: [ITK] [ITK-users] Merge N slices

Hi Dominik,

I do not have access anymore to this code...

Anyway, In my case the orientation of all images were the same...

In your case, since it is really generic problem, I would recommend computing first the final image origin, orientation, spacing, and so on, allocating and fill the buffer.

On the ith image, you iterate compute the world location of the pixel, from that you compute the corresponding index location on the final image, then set the pixel...

HTH
Arnaud

On 03.12.2015 14:22, dominik.hofer at gmail.com wrote:
> Dear Arnaud Gelas,
>
> I'm working on merging some slice volumes together into one volume 
> (they do not overlap, are not parallel and have spacing in between 
> slices) and I came across your thread where you write that you have 
> found a solution for this. My question is if you would be so kind to 
> share it. :)
>
> Link to thread: 
> http://itk-insight-users.2283740.n2.nabble.com/ITK-users-combining-N-i
> mages-tp7586088p7586104.html
>
> Cheers,
> Dominik
>
> _____________________________________
> Sent from http://itk-insight-users.2283740.n2.nabble.com
>

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