[Insight-users] Skeleton - itkBinaryThinningImageFilter3D

[Sergio Vera]

Hello

My guess is that the output image is correct, but your visualization
software has incorrect window/level values so you cannot see the white (255)
pixels.

Use your software window/level options and try to adjust them until you see
the skeleton or use another tool to generate an isosurface from the
skeleton.
I often use Seg3D to visualize data because it does not mess with
window/level stuff and also does not shown interpolated images so what I see
is closer to what the image really is.

regards


On Sat, May 29, 2010 at 6:05 PM, Daniela Sacchetto <danysunflower at hotmail.it
> wrote:

>  Hi Luis,
> your mails are always very useful for my works...
>
> I did what you asked me and thi is the output:
>
> OUTok.dcm sucessfully read.
>
> imageMin: 255
> imageMax: 0
>
> Skpr.dcm sucessfully written.
> Program terminated normally.
>
> What does it mean? It looks that some pixel are not black.....
>
> Regards,
> Daniela
>
>
> ------------------------------
> Date: Sat, 29 May 2010 11:05:58 -0400
>
> Subject: Re: [Insight-users] Skeleton - itkBinaryThinningImageFilter3D
> From: luis.ibanez at kitware.com
> To: danysunflower at hotmail.it
> CC: dan.muel at gmail.com; insight-users at itk.org
>
>
> Hi Daniela,
>
> First you have to verify if the output of the skeletonization
> filter had indeed all its pixels set to zero.
>
> You can do this with code similar to
>
>   #include "itkMinimumMaximumImageFilter.h"
>   typedef
>     itk::MinimumMaximumImageFilter<ScalarImageType> MinMaxFilterType;
>
>    MinMaxFilterType::Pointer minmaxFilter   = MinMaxFilterType::New();
>
>    skeletonFilter->Update();
>    image = skeletonFilter->GetOutput();
>
>    imageMin  = minmaxFilter->GetMinimum();
>    imageMax = minmaxFilter->GetMaximum();
>
>
>    and printing out these values.
>
>    In this way, you will remove the confounding factors of
>
>     * Saving the image in DICOM, and
>     * The visualization program / method that you use.
>
>
>
>     Please let us know what you find,
>
>          Thanks
>
>
>               Luis
>
>
>
> -----------------------------------------------------------------------------------
> On Sat, May 29, 2010 at 10:39 AM, Daniela Sacchetto <
> danysunflower at hotmail.it> wrote:
>
>  Thanks for your clarification, now I can compile my code in Release Mode
> and I have my output in a few seconds.
>
> Neverthless now I have an other problem that I want to discuss with you.
>
> My output is an dcm image but its pixels are all black...I can't see the
> skeleton because in my image all the white pixel disappear.... I think that
> it is a problem of algorithm's setting and that it erodes too much my
> image but I don't know how to solve this problem...
> Could anyone help me?
>
> Thanks a lot
> Daniela
>
>
>
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-- 
Sergio Vera

Alma IT Systems
C/ Vilana, 4B, 4º 1ª
08022 Barcelona
T. (+34) 932 380 592
www.alma3d.com
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