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<div style="font-family: Calibri,sans-serif; font-size: 11pt;">Thank you very much<br>
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Sent from my Windows Phone</div>
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<span style="font-family: Calibri,sans-serif; font-size: 11pt; font-weight: bold;">From:
</span><span style="font-family: Calibri,sans-serif; font-size: 11pt;"><a href="mailto:smoriw@gmail.com">Susumu Mori</a></span><br>
<span style="font-family: Calibri,sans-serif; font-size: 11pt; font-weight: bold;">Sent:
</span><span style="font-family: Calibri,sans-serif; font-size: 11pt;">15/11/2015 07:00 AM</span><br>
<span style="font-family: Calibri,sans-serif; font-size: 11pt; font-weight: bold;">To:
</span><span style="font-family: Calibri,sans-serif; font-size: 11pt;"><a href="mailto:mristudio-users@mristudio.org">DTI Studio, ROI Editor, DiffeoMap Questions/Support</a></span><br>
<span style="font-family: Calibri,sans-serif; font-size: 11pt; font-weight: bold;">Subject:
</span><span style="font-family: Calibri,sans-serif; font-size: 11pt;">Re: [Mristudio-users] Roi extraction from template and back projection in native space</span><br>
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<div dir="ltr">The image transformation by LDDMM is reversible. So, A->B and B->A are determined simultaneously and generate two transformation, Ki and H maps for both ways.
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<div>If you choose an atlas as a template and transform a patient data to it, patient->atlas is Ki map and atlas->patient is H map.</div>
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<div>If you define one ROI by yourself in image A, then you can apply this ROI to B. There are several important points;</div>
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<div>> For the transformation, you want to use "nearest neighbor". Your ROI is 1/0 masking. So, after the transformation, you still want 1/0 masking file without any interpolated values like 0.5.</div>
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<div>> If you define your ROI in only one slice, your ROI may disappear after the nearest neighbor transformation because the voxels with "1" is surrounded by a overwhelming number of surronding "0". So, you need to define your ROI in at least 3 slices.</div>
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<div class="x_gmail_quote">On Tue, Nov 10, 2015 at 7:29 PM, Shaimaa Abdelsattar <span dir="ltr">
<<a href="mailto:shaimaa96@hotmail.com" target="_blank">shaimaa96@hotmail.com</a>></span> wrote:<br>
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<div style="font-family:Calibri,sans-serif; font-size:11pt">Thanks Dr.Mori for your reply. I want to ask what is the difference between this process and the reverse ( I mean registration of the native space into template) regarding the accuracy of Roi data.<br>
Second question:<br>
If I applied hybrid approach for Roi drawing in a single slice, will this give accurate results as back projection of ROI?<br>
Sorry for elongation, but I got confused regarding the most accurate and precise method for ROI selection.<br>
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Thanks<br>
Shaimaa<br>
Sent from my Windows Phone</div>
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<span style="font-family:Calibri,sans-serif; font-size:11pt; font-weight:bold">From:
</span><span style="font-family:Calibri,sans-serif; font-size:11pt"><a href="mailto:smoriw@gmail.com" target="_blank">Susumu Mori</a></span><br>
<span style="font-family:Calibri,sans-serif; font-size:11pt; font-weight:bold">Sent:
</span><span style="font-family:Calibri,sans-serif; font-size:11pt">11/11/2015 02:22 AM</span><br>
<span style="font-family:Calibri,sans-serif; font-size:11pt; font-weight:bold">To:
</span><span style="font-family:Calibri,sans-serif; font-size:11pt"><a href="mailto:mristudio-users@mristudio.org" target="_blank">DTI Studio, ROI Editor, DiffeoMap Questions/Support</a>;
<a href="mailto:zhangyajing9996@gmail.com" target="_blank">Yajing Zhang</a></span><br>
<span style="font-family:Calibri,sans-serif; font-size:11pt; font-weight:bold">Subject:
</span><span style="font-family:Calibri,sans-serif; font-size:11pt">Re: [Mristudio-users] Roi extraction from template and back projection in native space</span><br>
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<div>You need to warp our atlas image to your subject data using DiffeoMap and apply the transformation to the atlases ROI file, such that the the subject brain is automatically segmented into various regions.</div>
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<div>Then you need to pick regions of interest using RoiEditor and feed it into DtiStudio for fiber tracking.</div>
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<div>I know that this is quite a process to master.</div>
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I would recommend to consult with Dr. Zhang about how to streamline the process.</div>
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<div>On Tue, Nov 10, 2015 at 6:18 PM, Shaimaa Abdelsattar <span dir="ltr"><<a href="mailto:shaimaa96@hotmail.com" target="_blank">shaimaa96@hotmail.com</a>></span> wrote:<br>
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<div style="font-family:Calibri,sans-serif; font-size:11pt">Dear experts,<br>
I'd like to ask how I can extract a roi of certain structure in the template and back project it in subject's native space for more accurate measurements using DTI studio, Roi editor or DiffeoMap.<br>
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Thank you in advance<br>
Shaimaa Mohammad, MD<br>
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Sent from my Windows Phone</div>
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