<div dir="ltr">Dear Susumu and Ravi,<div class="gmail_quote"><div dir="rtl"><div dir="ltr"> </div><div dir="ltr">Thank you for your help ! I think the best option for me is the third one - (copying it here)-</div><div class="im">
<div dir="ltr"> </div><div dir="ltr">
3) As Ravi suggested, you can warp our white matter parcellation map to<br> your subject image and automatically parcellate the corpus callosum into<br> three regions (the genu, body, and splenium of CC).</div><div dir="ltr">
</div></div><div dir="ltr">so my remaining questions (for now) are:</div><div dir="ltr"> </div><div dir="ltr">1) From where can I download the atlas ?</div><div dir="ltr">2) If can can give a short explanation regarding whether I should or should not co-register my DTI images to the T1 images ? In what case do we have to register the diffusion to the anatomy ? i.e., if I want to extract the Corpus-callosum from each subject and compare the FA value between patients and controls - Do I have to do this ?</div>
<div class="im">
<div dir="ltr"> </div><div dir="ltr">Thanks again for all your help</div><div dir="ltr">Rotem</div></div></div><div class="gmail_extra"><br><br><div class="gmail_quote"><div dir="ltr">2013/8/29 <span dir="ltr"><<a href="mailto:mristudio-users-request@mristudio.org" target="_blank">mristudio-users-request@mristudio.org</a>></span></div>
<div><div class="h5">
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Today's Topics:<br>
<br>
1. Re: FA value for regions in the corpus-callusom (Susumu Mori)<br>
2. Re: FA value for regions in the corpus-callusom<br>
(Kotikalapudi Raviteja)<br>
3. Re: FA value for regions in the corpus-callusom (Susumu Mori)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Thu, 29 Aug 2013 11:43:38 -0400<br>
From: Susumu Mori <<a href="mailto:smoriw@gmail.com" target="_blank">smoriw@gmail.com</a>><br>
Subject: Re: [Mristudio-users] FA value for regions in the<br>
corpus-callusom<br>
To: "DTI Studio, ROI Editor, DiffeoMap Questions/Support"<br>
<<a href="mailto:mristudio-users@mristudio.org" target="_blank">mristudio-users@mristudio.org</a>><br>
Message-ID:<br>
<CAEq9apJZ+6Dmu3S2bXB0p9CW0rkiLDzQX3GqVU7K9q_S2K=<a href="mailto:9UA@mail.gmail.com" target="_blank">9UA@mail.gmail.com</a>><br>
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<br>
There are several options depending on what you need;<br>
<br>
1) Do fiber tracking. It seems that you obtained 5 different tracts that<br>
comprise the corpus callosum. As you mentioned, you can obtain one FA per<br>
tract. In your case, 5 FA values. Each FA value is the representative FA of<br>
each tract by avaraging FA values of all voxels inside a tract.<br>
2) Instead of calculating a representative FA for each tract by averaging<br>
all voxels, you can also use the "profile" option, with which, you can<br>
obtain a FA value at each 2D slice (axial, sagittal, coronal separately).<br>
3) As Ravi suggested, you can warp our white matter parcellation map to<br>
your subject image and automatically parcellate the corpus callosum into<br>
three regions (the genu, body, and splenium of CC).<br>
<br>
Hope one the approaches addresses your need.<br>
<br>
<br>
<br>
<br>
On Thu, Aug 29, 2013 at 7:32 AM, Kotikalapudi Raviteja <<br>
<a href="mailto:raviteja.kotikalapudi@gmail.com" target="_blank">raviteja.kotikalapudi@gmail.com</a>> wrote:<br>
<br>
> Dear Rotem,<br>
><br>
> Though I couldn't get you completely, I understand that you need to<br>
> extract FA values and compare the same between subjects and controls. For<br>
> this purpose, you could download the JHU parcellation atlas and then use<br>
> MRICro to extract your ROIs using 'apply intensity to volume' option. This<br>
> particular ROI would then be saved and you could open it for the FA maps<br>
> and note down the values.<br>
><br>
> I hope this helps, if it is related.<br>
><br>
> Regards,<br>
> Ravi<br>
><br>
><br>
><br>
> On Thu, Aug 29, 2013 at 4:29 PM, Rotem Saar <<a href="mailto:saar.rotem@gmail.com" target="_blank">saar.rotem@gmail.com</a>> wrote:<br>
><br>
>> Dear experts,<br>
>><br>
>> I have performed Automatic image registration to 19 subjects (who I have<br>
>> DTI scans for) and now about to begin fiber tracking.<br>
>><br>
>> According to my previous anatomical results, I found volume reductions in<br>
>> specific areas of the corpus callosum, which were correlated to behavioral<br>
>> memory results. I now want to analyze the DTI data, and test for the<br>
>> correlations between the anatomical volume (per region, 5 in number),<br>
>> memory performance and FA values (per region, 5 in number).<br>
>><br>
>> In the current working program in DTIstudio I only know how to extract a<br>
>> singe FA value for the corpuse if this is what I marked for the fiber<br>
>> tracking. I understand that I can mark a single area in the corpus each<br>
>> time but that will probably won't be accurate when comparing subjects...<br>
>><br>
>> Is there any way to load a segmentation map in order for DTIstudio to<br>
>> compute the FA value for each region defined in the map automatically<br>
>> without the need to mark each time a different region ? if there is such an<br>
>> option, I will really appreciate if u can explain what parameters (file<br>
>> type ect...) it should contain.<br>
>><br>
>> I really want to come to the tutorial, but the thing is I live in the<br>
>> other side of the sea:) so that won't be so easy for me to do...<br>
>><br>
>> Thanks again for all your help<br>
>> Rotem<br>
<br>
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