Thanks Susumu. I'll try that.<div><br></div><div>Siewmin<br><br><div class="gmail_quote">On Tue, Feb 24, 2009 at 6:37 AM, susumu <span dir="ltr"><<a href="mailto:susumu@mri.jhu.edu">susumu@mri.jhu.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
<div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">Hi Siewmin,</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2"></font></span> </div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">Please make sure that you correctly set the "flip" options.
If you are using Siemens and the manufacturer-provided gradient table, the
chance is high that you have to "X-flip" before fiber tracking. If you are
using Philips, then "Z-flip".</font></span></div>
<div dir="ltr" align="left"><span></span> </div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">Please place an ROI in the mid-sagittal corpus
callosum and make sure that you get the correct shape of the corpus
callosum. If not, you could be setting the "flip" in a wrong
way.</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2"></font></span> </div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">There is a detailed description about the "flip" function
in the DtiStudio manual.</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2"></font></span> </div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">Susumu</font></span></div><br>
<div lang="en-us" dir="ltr" align="left">
<hr>
<font face="Tahoma" size="2"><b>From:</b> <a href="mailto:mristudio-users-bounces@mristudio.org" target="_blank">mristudio-users-bounces@mristudio.org</a>
[mailto:<a href="mailto:mristudio-users-bounces@mristudio.org" target="_blank">mristudio-users-bounces@mristudio.org</a>] <b>On Behalf Of </b>Siewmin
Gan<br><b>Sent:</b> Saturday, February 21, 2009 8:23 AM<br><b>To:</b>
<a href="mailto:mristudio-users@mristudio.org" target="_blank">mristudio-users@mristudio.org</a><br><b>Subject:</b> [Mristudio-users] temporal lobe
tracts<br></font><br></div><div><div></div><div class="Wj3C7c">
<div></div>Dear all,
<div> I am trying to reproduce
some tracts associated with the temporal lobe using the ROI drawing protocols
from the paper "Reproducibility of Quantitative Tractography Methods Applied to
Cerebral White Matter". The acquisitions of the DTI are similiar to the paper. I
had good results with the ILF, but couldn't get the uncinate fasciculus and
cingulum in controls and patients data. For these tracts, after I draw the 1st
ROI with the "Or" function, I couldn't see tracts in the specified area/slice
mentioned in the protocol to place the 2nd ROI.</div>
<div><br></div>
<div> I wonder if I have misinterpreted the protocols. Secondly, the dti
slices were acquired parallel to the AC-PC line in the paper and the protocols
are based on anatomical landmarks. If the dti data I tried on are not acquired
exactly parallel to the AC-PC line, would it make a difference in the
reproducibility using the protocol? Much appreciated if any of you have tried
and could derive these two tracts.</div>
<div><br></div>
<div>Many Thanks</div>
<div><br></div>
<div>Siewmin</div></div></div></div>
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<br></blockquote></div><br></div>