[ITK Community] bone segmentation

[Luis Ibanez]

Hi Pierre,

We have been experimenting with 3D printer lately,
and will be happy to help.

          http://www.kitware.com/blog/home/post/591
          http://www.kitware.com/blog/home/post/610


One of the easiest methods to perform bone segmentation
is to use the region growing filters, in particular the:

                  ConnectedThresholdImageFilter
http://www.itk.org/Doxygen/html/itkConnectedThresholdImageFilter_8h.html

Please keep in mind that segmentation requires a bit of
parameter tuning.

In the case of bone structures in CT, you typically can
expect the bones to have intensities in the range of

                                   600~700  HU

up to

                                   2000+    HU

This implies that you can approach the bone segmentation
by first placing a set of seeds on the brightest part of the
bone that you want to segment.

Set the Upper threshold to a very high value (3000, for example)
since normally there wouldn't be any brighter values in the image
than bone, (unless there are implant artifacts).

Set the Lower threshold to 800, and then run the filter.

If the resulting segmentation goes too far, then increase the value
of the lower threshold and rerun the filter.

Overall, the process is capturing bone pixels by going down
the levels of intensity in HU.


There are many other segmentation techniques that would be
applicable here, but region growing thresholding is a good
place to start.


    Please let us know if we can help with more details,


       Thanks


           Luis




On Sun, Jan 19, 2014 at 9:08 AM, Pierre Starkov <starkovpierre at yahoo.com>wrote:

> Hello,
>
> I'm a med school student from Geneva, Switzerland, and i'm currently
> working on a plugin project for a software called Osirix (
> http://www.osirix-viewer.com/).
> I'm totally new to ITK, so i have a few questions.
>
> My plugin has to segment bones from a set of ct-scan images, make it 3D,
> and send the whole to a 3D printer.
> I wonder if you would have any suggestions of how to perform a nice and
> quick bone segmentation using ITK.
> I mean, what would be the right functions to use, from the ITK-library for
> the segmentation part? :)
>
> Hope you can help me in my task.
> Best Regards,
>
> Pierre Starkov
>
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>
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