<div dir="ltr">Hi Ravi,<div><br></div><div>Our DtiStudio/MriStudio is not really a tool for cross-modal (e.g. T1 vs DTI) registration, but you can use DiffeoMap to register T1 and DTI images using AIR built inside DiffeoMap. I believe T1-FA would be difficult because the contrast is so different and brain boundary is not well delineated in FA. I would suggest T1-b0 or T1-Sigma(DWI) (=add all DWIs) to drive the registration. AIR automatically adjust the matrix size and pixel size.</div>
<div><br></div><div>The registration would not be perfect because T1 and DTI are differently deformed due to B0 susceptibility. </div><div><br></div><div>Alternatively, you can try our direct percellation of DTI data using DiffeoMap/RoiEditor.</div>
<div><br></div><div>Susumu</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Mon, Aug 12, 2013 at 1:37 AM, Kotikalapudi Raviteja <span dir="ltr"><<a href="mailto:raviteja.kotikalapudi@gmail.com" target="_blank">raviteja.kotikalapudi@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hi,<div><br></div><div>I really appreciate your help. I am able to solve the gradient table issue. I have co-registered FA maps to their respective T1 images.</div>
<div><b>FA image dimension: 128x128x70</b></div>
<div><b>T1 image dimension: 256x256x165</b></div><div><b>Co-registered image dimensions: 256x256x165</b></div><div><b><br></b></div><div><b>Now, I want to extract FA values for particular ROIs using automated parcellation atlas. But for that process to take place, my image dimensions should match the dimensions of the parcellation atlas. </b></div>
<div><b><br></b></div><div><b>Could you please suggest me a way to fix this problem? </b></div><div><b>Many thanks,</b></div><div><b>Ravi</b></div><div><b><br></b></div><div><b><br></b></div><div><br></div></div><div class="gmail_extra">
<br><br><div class="gmail_quote">On Tue, Aug 6, 2013 at 7:06 AM, susumu mori <span dir="ltr"><<a href="mailto:smoriw@gmail.com" target="_blank">smoriw@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="ltr">Hi Ravi,<div><br></div><div>are you reading DICOM files?</div><div>If so, the cause of the crash is usually the DTI image file and the gradient table you specified didn't match.</div><div>Can you read the file using the "open" button? If you can read and see the images, count how many 3D volumes are loaded. I believe you can find 34 volumes for Philips High table. </div>
<div>Then load the same data using DtiMapping, specify the gradient table. Here, make sure you really have 34 rows in the table.</div></div><div><div><div class="gmail_extra"><br><br><div class="gmail_quote">
On Mon, Aug 5, 2013 at 3:00 AM, Kotikalapudi Raviteja <span dir="ltr"><<a href="mailto:raviteja.kotikalapudi@gmail.com" target="_blank">raviteja.kotikalapudi@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Dear All,<div>I am writing in context TENSOR CALCULATION. This is the second project for which I am using the DTI Studio. I am using Philips High Angular 32 as the gradient table.</div>
<div><br></div><div><b>1. While clicking on 'ADC-Map' , DTI Studio crashes showing the following error:</b></div>
<div><b> MRI VIEW 3D MFC application has stopped. </b></div><div><b>2. If at all it is successful, Tensor maps which are generated are wrong.</b></div><div><b><br></b></div><div><b>I feel there is no problem with the computer memory. So do I need to look into the gradient maps if those were the correct for this research?</b></div>
<div><br></div><div>Please provide help ASAP. I thank you for your time and consideration.</div><div><br></div><div>Regards,</div><div>Ravi</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Sun, Aug 4, 2013 at 6:07 AM, susumu mori <span dir="ltr"><<a href="mailto:smoriw@gmail.com" target="_blank">smoriw@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hi YM,<div><br></div><div>When you do tensor calculation by DtiStudio, after clicking "tensor calculation" button, you can set a threshold value to mask out all the noise floor outside the brain.</div>
</div><div><div><div class="gmail_extra"><br><br><div class="gmail_quote">On Thu, Aug 1, 2013 at 7:26 AM, Youngmin Huh <span dir="ltr"><<a href="mailto:ymin1123@gmail.com" target="_blank">ymin1123@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi,<br>
There is too much noise outside the brain, so I want to apply brain<br>
mask to eliminate the noise.<br>
I tried to use ROI editor to make brain mask, using skull strip. I<br>
obtained mask.nii on scrolldown box and saved it to a dat file.<br>
but I could not load it for tensor calculation. I found 'select a<br>
mask-image' option, but only subjectname.dat-0, subjectname.dat-1,<br>
...-2, ...-3 was available.<br>
how could I apply mask image for Tensor calculation?<br>
<br>
I would appreciate any comments.<br>
<br>
<br>
YM Huh<br>
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