Hi Harish,<div><br></div><div>Please take a look at our DiffeoMap and RoiEditor.</div><div>The former has many functions for image registration and the latter can do ROI operations including automated atlas-based segmentation.</div>
<div><br></div><div>Please refer to papers by Jiangyang Zhang/Manisha Aggarwal/Duan in NeuroImage about the mouse atlas-based brain segmentation. Let us know if you want to use our pre-segmented mouse atlases.</div><div><br>
</div><div>You can find tutorials and some manual materials in <a href="http://www.mristudio.org">www.mristudio.org</a>.</div><div><br></div><div>Susumu<br><br><div class="gmail_quote">On Tue, Jul 26, 2011 at 11:39 AM, Poptani, Harish <span dir="ltr"><<a href="mailto:Harish.Poptani@uphs.upenn.edu">Harish.Poptani@uphs.upenn.edu</a>></span> wrote:<br>
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<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy">Hello Susumu,<u></u><u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy"><u></u> <u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy"><u></u> <u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy">Is there an easy way to co-register and
analyze ex vivo DTI from the mouse brain? We have been acquiring
high-resolution DTI data of the mouse brain and use DTI studio to process and
analyze the data. Since these are phenotypically different mice, the
differences in anatomy are not obvious and in order to assess DTI differences
(FA for example), we need to make sure that all the brains are aligned and
matched to each other. While there seems to be a way for performing the
co-registration step within DTI studio, I have not been able to figure out a
way to save the ROI such that it can be used for all the different samples. Can
you/anyone else please guide us through this?<u></u><u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy"><u></u> <u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy">Regards<u></u><u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy"><u></u> <u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy">Harish<u></u><u></u></span></font></p>
<p class="MsoNormal"><font size="2" color="navy" face="Arial"><span style="font-size:10.0pt;font-family:Arial;color:navy"> <u></u><u></u></span></font></p>
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