Hi Regine,
you can look into vmtkimagevoipainter for manually editing an image, although
the editing functionality is very basic (just fill a box with a value) for the
time being.
Probably 3DSlicer is your best bet: run the vmtkimageinitialization script and
output an mha file, which will contain your initialized volume.
Then load your data into 3DSlicer and use the Editor module to manually edit
your volume. Save it back and use vmtklevelsetsegmentation specifying
-initiallevelsetsfile modified_initialization.mha to import the modified image
back.
One possible stumbling block is if your image has an oblique orientation in
space, which may cause your original volume and the level sets to not be
correctly aligned in space.
In that case you'll have to manually change the direction cosines of your
initialized volume before reading (or you can do the same from within Slicer).
You write that you didn't have luck with 3DSlicer: what is the issue that you
had?
As to lumps you have a few options:
1. use a nonzero value of curvature in levelset evolution
2. use a nonzero value of the -featurederivativesigma in
vmtklevelsetsegmentation (this one is the width of the gaussian filter used for
taking derivatives, expressed in mm (or whatever unit your image is in))
3. interactively clip the bump using vmtksurfaceclipper (using either -type box
or -type sphere as a clipping widget) and then cap the hole using
vmtksurfacecapper -method smooth
The latter is more dramatic but more local.
Best,
Luca
On Jun 26, 2012, at 9:27 AM, richschm...@web.de wrote:
> Dear all,
>
> I am working with the levelsetsegmentation at the moment and I am wondering
> whether it's possible to see the single slices of the DICOM data and the
> labelled pixels I got by the initialization (I am using colliding fronts) so
> that I can add some pixels or erase some from the selection? The problem is I
> want to add an artificial stenosis to my geometry and to repair some parts (
> I already tried to load the data into 3D Slicer after initialization, but
> didn't succeed in what I want to do).
>
> Another thing is I still have some lumps on my vessel-surface (due to
> superpositions and smaller vessels). I tried to remove them via kiteremoval
> and smoothing, but there are still some lumps left. Does somebody have a
> solution for this (If the problem mentioned above is solved, I guess I could
> also solve this one via unselecting the relevant pixels)?
>
> Does anybody have an idea?
> Thanks a million for any help!
> Regine
>
>
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