Dear Jon,<br><br>Thank you. This was already helpful.<br><br>Best regards, <br>Claudia<br><br><br><div class="gmail_quote">2011/12/7 Jon Haitz Legarreta <span dir="ltr"><<a href="mailto:jhlegarreta@vicomtech.org">jhlegarreta@vicomtech.org</a>></span><br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">Dear Claudia,<br>as for the dimensions, since ITK image types are templated over the dimensionality, ITK will perform segmentation over 2D or 3D images without any further consideration<br>
.<br>As for the noise, you can try any edge preserving smothing filter ITK offers (depending on the input images and requirements you have). You will get rid of the noise and the sharp boundaries of your structures of interest will be hopefully preserved, since you will need them afterwards to perform the segmentation.<br>
If you didn't have a look at it yet, the ITK Software Guide may give you some hints on this.<br><br>In order to fill the holes, since you will apply the filter to an already binarized image you may want to use the use the BinaryMorphologicalClosingImageFilter. It works quite well. <br>
<br>So far, I've only used VTK for visualization purposes, so I am not aware of the image processing filters it may have.<br><br>Hope this helps.<br><br>Kind regards,<br>JON HAITZ<br><br clear="all"><table align="center" border="0" cellpadding="0" cellspacing="0">
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<br><br><div class="gmail_quote"><div><div class="h5">On 6 December 2011 16:42, mlsc 310 <span dir="ltr"><<a href="mailto:mlsc310@gmail.com" target="_blank">mlsc310@gmail.com</a>></span> wrote:<br></div></div><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<div><div class="h5">
Hi, <br><br>I would like to do 3D segmentation on noisy medical images.
The aim is to obtain at the end a binarized image volume where voxels
that correspond to tissue are set to 1 and the background voxels are set
to 0. I can consider that the object is uniform, but I have to
eliminate the noisy voxels on the background and after segmentation I
need to fill the holes on the object that I'll get during the
segmentation process.<br>
As I'm using C++, I think that I can find on ITK and VTK some of the
tools I need, but it is not clear for me which tools are more
appropriate and when shall I use ITK or VTK for some of the steps.<br>So
far, I'm trying to find out if ConnectedThresholdImageFilter (ITK),
FillHolesFilter (VTK) and PolyDataToImageData (VTK) are of any use on
this.<br>
I appreciate any help. <br><br>Regards,<br>Claudia
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