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I’m looking at the example: </div>
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<code style="color: rgb(80, 80, 80);">datasynth -walkers 100000 -tmax 1000 -voxels 1 -p 0.0 -schemefile my.scheme -initial uniform -substrate inflammation -increments 1 -gamma 1.84037 7.8E-7 -substratesize 3.5E-5 -numcylinders 100 > gammacyls.bfloat </code><br style="color: rgb(80, 80, 80); font-family: Arial, Verdana, Helvetica, sans-serif; font-size: 13px;">
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From <a href="http://cmic.cs.ucl.ac.uk/camino/index.php?n=Tutorials.MCSimulator#toc10">http://cmic.cs.ucl.ac.uk/camino/index.php?n=Tutorials.MCSimulator#toc10</a></div>
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<div>If I construct a gamma PDF using matlab assuming a=1.84037 and b=7.8E-7, I see a median radius of about 176. It is not clear to me how to interpret these units. </div>
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<div>I do not see where the system would output the actual radii of the cylinders used in a particular simulation, so I don’t know how to double check units. However, the documentation seems to imply that the simulations are conducted on a 35x35um array, so
176 does seem to match a reasonable unit. </div>
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<div>Here is the line of Matlab code that I am using to see the PDF: </div>
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<div>x=linspace(0,1000,1000); px = pdf('gamma',x,'a',1.84037,'b',7.8E-7); plot(x,px)</div>
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<div>Documented here: <a href="http://www.mathworks.com/help/stats/pdf.html">http://www.mathworks.com/help/stats/pdf.html</a></div>
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<div>Thanks,</div>
<div>Bennett</div>
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<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><b><font size="2" face="Calibri"><span style="font-size: 10pt;">Bennett Landman, Ph.D., </span></font></b><a href="mailto:bennett.landman@vanderbilt.edu" target="_blank" style="color: rgb(149, 79, 114);"><b><font size="2" color="blue"><span style="font-size: 10pt;">bennett.landman@vanderbilt.edu</span></font></b></a><b><font size="2"><span style="font-size: 10pt;"></span></font></b><o:p></o:p></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><b><font size="2" face="Calibri"><span style="font-size: 10pt;">Assistant Professor</span></font></b><o:p></o:p></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><i><font size="2" face="Calibri"><span style="font-size: 10pt;"> Electrical Engineering (primary),<o:p></o:p></span></font></i></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><b><font size="2" face="Calibri"><span style="font-size: 10pt;"> </span></font></b><i><font size="2"><span style="font-size: 10pt;">Computer Science, Biomedical Engineering,</span></font></i><o:p></o:p></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><b><font size="2" face="Calibri"><span style="font-size: 10pt;"> </span></font></b><i><font size="2"><span style="font-size: 10pt;">Radiology and Radiological Sciences<o:p></o:p></span></font></i></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><i><font size="2" face="Calibri"><span style="font-size: 10pt;"> Vanderbilt University</span></font></i><i><o:p></o:p></i></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><b><font size="2" face="Calibri"><span style="font-size: 10pt;">Director of the Center for Computational Imaging<o:p></o:p></span></font></b></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; font-size: 11pt;"><b><font size="2" face="Calibri"><span style="font-size: 10pt;"> </span></font></b><i><font size="2"><span style="font-size: 10pt;">Vanderbilt University Institute of Image Science</span></font></i><o:p></o:p></p>
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