<div dir="ltr">I wonder if it is simply visualization issue.<div>Please make sure to choose "sagittal" for visualization, when you load the data.</div><div>Because now your image Z is anatomical RL, your RL fiber should look blue, which is different from the conventional DTI presentation, but it is just a cosmetic issue.</div>
</div><div class="gmail_extra"><br><br><div class="gmail_quote">On Fri, Nov 8, 2013 at 12:19 PM, Vadim Malis <span dir="ltr"><<a href="mailto:vadmalis@mail.com" target="_blank">vadmalis@mail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word">We are acquiring a DTI sagital slice of the lower leg on a 1.5 T GE scanner (feet first, supine). When we look at the bvec values in the DICOM header, they are correctly (re) oriented. This is by comparison to an axial DTI scan (our regular orientation for DTI). We also confirmed from the mristudio-users group that indeed GE scanners give the correct bvec orientation that tracks slice orientation. However, when we extract the eigenvectors for the sagittal slice using the bvecs from the DICOM headers, the lead eigenvector shows the X axis (LR) and the Z axis (SI) switched. Where we expect fiber eigenvectors to point SI, they are in LR. When we switched gradient values in the bvec file (X-->Z and Z--> X) we did get the DTI lead eigenvector to be in the correct direction, but when fiber tracking it appears somehow the tracking switches X and Z again. We would really appreciate if an expert could tell us what we are doing wrong.<div>
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</span></font></div><div style="word-wrap:break-word"><font face="'Gill Sans MT'"><span style="font-size:13px">------------------------------------------------------------------------------------------------------------------------------<br>
</span></font><font face="'Gill Sans MT'"><span style="font-size:13px">Vadim Malis</span></font></div></span></div></span></div></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></span></div>
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