<div dir="rtl"><div class="gmail_quote"><div dir="ltr"> </div><div class="gmail_extra"><div dir="ltr" class="gmail_quote">Dear Susumu,</div><div dir="ltr" class="gmail_quote"> </div><div dir="ltr" class="gmail_quote">Thank u for your explanation.</div>
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So I understand now that the AIR tool is for intra-DTI motion correction - I will register my images to the b0 one.</div><div dir="ltr" class="gmail_quote">You understood me correctly when saying that I want to perform a cross-scan, within-subject image alignment.</div>
<div dir="ltr" class="gmail_quote">I now understand that u have a tool named DiffeoMap that can do that, i.e. perform DTI calculation first, and then register images (e.g. T1 vs DTI) using DiffeoMap. - Since I don't know this tool - can u direct me to a place where I can read about how to use it ?</div>
<div dir="ltr" class="gmail_quote"> </div><div dir="ltr" class="gmail_quote">Thanks you all for your great help !</div><span class="HOEnZb"><font color="#888888"><div dir="ltr" class="gmail_quote"> </div><div dir="ltr" class="gmail_quote">
Rotem<br></div></font></span><div><div class="h5"><div dir="ltr" class="gmail_quote">
</div><div dir="ltr" class="gmail_quote">Hi Rotem,<br><br> I'm not quite sure what you want to do in #2. Are you trying to use, say, a<br> T1-weighted image, as a reference image and register all DWIs to the<br> anatomical scan?<br>
<br> If you want to do so, you need to load both T1 and DTI data within one<br> window. It may work, but the AIR in DtiStudio was developed for intra-DTI<br> motion correction, not for cross-scan registration. So, I've never tried it.<br>
<br> For the cross-scan, within-subject image alignment, we usually perform DTI<br> calculation first, and then register images (e.g. T1 vs DTI) using<br> DiffeoMap.<br><br> Susumu<br><br><br><br> On Mon, Aug 19, 2013 at 6:57 AM, Rotem Saar <<a href="mailto:saar.rotem@gmail.com" target="_blank"><font color="#0066cc">saar.rotem@gmail.com</font></a>> wrote:<br>
<br>> Dear experts,<br>> <br>> I am a new user of DTI studio who wants to analyze my DTI data using<br>> DTIstudio.<br>> We use a Philip scanner 1.5T and we are working with DICOMs, 1 b0, 15<br>> gradients and from the last one (17) we ignore. All in all - we have 714<br>
> dicoms we enter to DTIstudio.<br>> I'm trying to understand what (and how many) registrations I need to<br>> perform -<br>> <br>> 1) I want all the DTI images will be referenced to the b0 image. To do<br>
> that, I guss I need to mark the first gradient in my list (which is the b0)<br>> for reference image, under "automatic image registration". Under "images to<br>> be registered" I will take all my DTI gradients. I marked the Affine<br>
> transformation, and it seemed to work.<br>> <br>> 2) Now, what happens if I want to take the created data on AIR format as<br>> created in the last step (I did not mark the "create new images" under<br>
> "automatic image registration" on purpose) and register it to the<br>> anatomical data, *and only then *- calculate the tensor ? Should I now<br>> define the reference image as one of the anatomical images, and under<br>
> "images to be registered" take all the Air DTI gradients (created in step<br>> 1) ?<br>> <br>> I read the tutorial, watched all your videos, even read in *.doc file on<br>> the net and went to read qs in the forum hopping to find answers - but with<br>
> no luck.<br>> <br>> If you will be able to specified the steps I need to perform / direct me<br>> to the place I can find detailed instructions on "automatic image<br>> registration" this will help allot !!<br>
> <br>> Thank you so much for your help,</div></div></div></div></div></div>