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1 2 3 | <html><head><meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1"><title>mia-3dsegment-ahmed</title><link rel="stylesheet" type="text/css" href="progref.css"><meta name="generator" content="DocBook XSL Stylesheets V1.79.1"><link rel="home" href="index.html" title="Mia Program Reference"><link rel="up" href="SecAnalysisfilteringcombiningandsegmentationof3Dimages.html" title="Analysis, filtering, combining, and segmentation of 3D images"><link rel="prev" href="Secmia3dproposeboundingbox.html" title="mia-3dpropose-boundingbox"><link rel="next" href="SecRegistrationComparisonandTransformationof3Dimages.html" title="Registration, Comparison, and Transformation of 3D images"></head><body bgcolor="white" text="black" link="#0000FF" vlink="#840084" alink="#0000FF"><div class="navheader"><table width="100%" summary="Navigation header"><tr><th colspan="3" align="center">mia-3dsegment-ahmed</th></tr><tr><td width="20%" align="left"><a accesskey="p" href="Secmia3dproposeboundingbox.html">Prev</a> </td><th width="60%" align="center">Analysis, filtering, combining, and segmentation of 3D images</th><td width="20%" align="right"> <a accesskey="n" href="SecRegistrationComparisonandTransformationof3Dimages.html">Next</a></td></tr></table><hr></div><div class="section"><div class="titlepage"><div><div><h3 class="title"><a name="Secmia3dsegmentahmed"></a>mia-3dsegment-ahmed</h3></div></div></div><h4><a name="idp10766"></a>Sysnopis:</h4><div class="cmdsynopsis"><p><code class="command">mia-3dsegment-ahmed</code> {-i <em class="replaceable"><code>io</code></em>} {-c <em class="replaceable"><code>io</code></em>} [
<em class="replaceable"><code>options</code></em>
...]</p></div><h4><a name="idp10775"></a>Description:</h4><p>This program implements a variation of the paper:Mohamed N. Ahmed et. al, "A Modified Fuzzy C-Means Algorithm for Bias Field estimation and Segmentation of MRI Data", IEEE Trans. on Medical Imaging, Vol. 21, No. 3, March 2002, changes are: p=2, and exp</p><h4><a name="idp10777"></a>Options:</h4><h4><a name="idp10778"></a>File-IO</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-i, --in-file=(input, required); io</span></dt><dd><p>image to be segmented. For supported file types see <a class="xref" href="SecPlugintype3dimageio.html" title="Plugin type: 3dimage/io">Plugin type: 3dimage/io</a></p></dd><dt><span class="term">-c, --class-file=(output, required); io</span></dt><dd><p>class probability images, the image type must support multiple images and floating point values. For supported file types see <a class="xref" href="SecPlugintype3dimageio.html" title="Plugin type: 3dimage/io">Plugin type: 3dimage/io</a></p></dd><dt><span class="term">-b, --out-file=(output); io</span></dt><dd><p>Bias corrected image will be of the same type like the input image. If this parameter is not given, then the bias correction will not be applied.. For supported file types see <a class="xref" href="SecPlugintype3dimageio.html" title="Plugin type: 3dimage/io">Plugin type: 3dimage/io</a></p></dd></dl></div><h4><a name="idp10795"></a>Help & Info</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-V, --verbose=warning; dict</span></dt><dd><p>verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are:</p><div class="informaltable"><table class="informaltable" border="0"><colgroup><col class="c1"><col class="c2"></colgroup><tbody><tr><td align="left" valign="top">info:</td><td align="left" valign="top">Low level messages</td></tr><tr><td align="left" valign="top">trace:</td><td align="left" valign="top">Function call trace</td></tr><tr><td align="left" valign="top">fail:</td><td align="left" valign="top">Report test failures</td></tr><tr><td align="left" valign="top">warning:</td><td align="left" valign="top">Warnings</td></tr><tr><td align="left" valign="top">error:</td><td align="left" valign="top">Report errors</td></tr><tr><td align="left" valign="top">debug:</td><td align="left" valign="top">Debug output</td></tr><tr><td align="left" valign="top">message:</td><td align="left" valign="top">Normal messages</td></tr><tr><td align="left" valign="top">fatal:</td><td align="left" valign="top">Report only fatal errors</td></tr></tbody></table></div></dd><dt><span class="term">--copyright=(); bool</span></dt><dd><p>print copyright information</p></dd><dt><span class="term">-h, --help=(); bool</span></dt><dd><p>print this help</p></dd><dt><span class="term">-?, --usage=(); bool</span></dt><dd><p>print a short help</p></dd><dt><span class="term">--version=(); bool</span></dt><dd><p>print the version number and exit</p></dd></dl></div><h4><a name="idp10846"></a>Parameters</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-n, --no-of-classes=3; int</span></dt><dd><p>number of classesnumber of classes</p></dd><dt><span class="term">-C, --class-centres=</span></dt><dd><p>initial class centers, this parameter overrides 'no-of-clases'.</p></dd><dt><span class="term">-s, --spread=64; float</span></dt><dd><p>spread parameter describing the strength of mattar distinctionspread parameter describing the strength of mattar distinction</p></dd></dl></div><h4><a name="idp10860"></a>Processing</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">--threads=-1; int</span></dt><dd><p>Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).</p></dd></dl></div><h4><a name="idp10866"></a>Example:</h4><p>Run a 5-class segmentation over input image input.v and store the class probability images in cls.v.</p><pre class="screen">mia-3dsegment-ahmed -i input.v -a 5 -o cls.v</pre><h4><a name="idp10869"></a>Author(s):</h4><p>Gert Wollny</p></div><div class="navfooter"><hr><table width="100%" summary="Navigation footer"><tr><td width="40%" align="left"><a accesskey="p" href="Secmia3dproposeboundingbox.html">Prev</a> </td><td width="20%" align="center"><a accesskey="u" href="SecAnalysisfilteringcombiningandsegmentationof3Dimages.html">Up</a></td><td width="40%" align="right"> <a accesskey="n" href="SecRegistrationComparisonandTransformationof3Dimages.html">Next</a></td></tr><tr><td width="40%" align="left" valign="top">mia-3dpropose-boundingbox </td><td width="20%" align="center"><a accesskey="h" href="index.html">Home</a></td><td width="40%" align="right" valign="top"> Registration, Comparison, and Transformation of 3D images</td></tr></table></div></body></html>
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