<div dir="ltr">The usual thing I do when testing watersheds in a new application is to manually create marker images using an image segmentation tool, such as itksnap or fslview. The format of the image doesn't matter, as long as ITK can read it. The key thing is to make sure you save a label image - i.e one with each marker having a different voxel value. This gives you an idea of how sensitive the problem is to marker placement and what sort of control image you might need.</div><div class="gmail_extra"><br><div class="gmail_quote">On Sun, Feb 12, 2017 at 2:58 AM, Abdelkhalek Bakkari <span dir="ltr"><<a href="mailto:bakkari.abdelkhalek@hotmail.fr" target="_blank">bakkari.abdelkhalek@hotmail.fr</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
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<p>Dear Dr Richard Beare,</p>
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<p>I am trying your code source which is published in the insight journal about the " <span style="font-size:12pt">The watershed transform in ITK - discussion </span><span style="font-size:12pt">and new developments</span><span style="font-size:12pt">".</span></p>
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<p>I debugged the perf3D and mperf3D. However, in the mperf3D, it needs two input images. Could you please explain for me the way of adopting it for a .mha file ?</p>
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<p>Thank you in advance.</p>
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<p>Best regards, </p>
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<div id="m_2991708111041691181Signature"><font size="3" face="Garamond">Abdelkhalek Bakkari</font>
<div><span style="line-height:14px"><font size="3" face="Garamond">Ph.D candidate in Computer Science</font></span></div>
<div><span style="line-height:20.82666778564453px;background-color:rgb(255,255,255)"><font face="Garamond" size="3">Institute of Applied Computer Science</font></span></div>
<div><span style="line-height:18.399999618530273px"><font face="Garamond" size="3">Lodz University of Technology, Poland</font></span></div>
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<div id="m_2991708111041691181divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>From:</b> Richard Beare <<a href="mailto:richard.beare@gmail.com" target="_blank">richard.beare@gmail.com</a>><br>
<b>Sent:</b> 10 February 2017 22:00<br>
<b>To:</b> Abdelkhalek Bakkari<br>
<b>Cc:</b> insight-users<br>
<b>Subject:</b> Re: [ITK-users] Watershed for 3D Image Segmentation - One Seed Point -</font>
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<div dir="ltr">The greedy approaches, like MorphologicalWatershedFromMark<wbr>ers, require 2 seeds. One is the background seed. Sometimes that can be something very simple like the image boundary. The advantage of greedy approaches is that you don't need to specify
stopping conditions. The cost is obviously the extra seed. Another advantage is that most of the methods naturally support lots of independent seeds, if you want them.</div>
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<div class="gmail_quote">On Sat, Feb 11, 2017 at 7:45 AM, Abdelkhalek Bakkari <span dir="ltr">
<<a href="mailto:bakkari.abdelkhalek@hotmail.fr" target="_blank">bakkari.abdelkhalek@hotmail.<wbr>fr</a>></span> wrote:<br>
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<p><span style="font-family:"Times New Roman",Times,serif;font-size:12pt">Dear ITK users,</span></p>
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<pre><span style="font-family:"Times New Roman",Times,serif;font-size:12pt">I Would like to know if there is an algorithm in ITK that is proposed </span><span style="font-family:"Times New Roman",Times,serif;font-size:12pt">for a semi-automatic segmentation of three-dimensional images. </span></pre>
<pre><span style="font-family:"Times New Roman",Times,serif;font-size:12pt">One</span><span style="font-family:"Times New Roman",Times,serif;font-size:12pt"> seed location should be </span><font face="Times New Roman, Times, serif">chosen</font><span style="font-family:"Times New Roman",Times,serif;font-size:12pt"> like in Region Growing.</span></pre>
<span style="font-family:"Times New Roman",Times,serif;font-size:12pt">Thank you in advance.</span>
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<div><span style="font-family:"Times New Roman",Times,serif;font-size:12pt">Best regards,</span><br>
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<div id="m_2991708111041691181m_-7528778179228607332Signature"><font size="3" face="Garamond">Abdelkhalek Bakkari</font>
<div><span style="line-height:14px"><font size="3" face="Garamond">Ph.D candidate in Computer Science</font></span></div>
<div><span style="line-height:20.82666778564453px;background-color:rgb(255,255,255)"><font face="Garamond" size="3">Institute of Applied Computer Science</font></span></div>
<div><span style="line-height:18.399999618530273px"><font face="Garamond" size="3">Lodz University of Technology, Poland</font></span></div>
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