<div>Salvador,</div><div><br></div><div>Your mouse pointer position is not the center of your ROI. It is top-left corner of your ROI. There is 4-arrow buttons (named move ROI) right-lower part of the ROI editor control panel. Adjust your ROI with the buttons. ROI will move by one pixel unit.</div>
<div>The drawn ROI will be pixelized. So if you draw a circular ROI it will have pixelized boundary. For the small ROI, rectangular shape will make more sense. You can define the ROI dimensions (width and hight) with option "fixed size".</div>
<div><div>If you fixed the ROI to the object, the arrow button will not work. <div>Make your that you move the ROI location before pressing the add button.</div><div><br></div><div>I am not aware of ROI importing between DTI studio and ImageJ, <br>
<div><br></div><div>Best,</div><div>-SC <div><br><div class="gmail_quote">On Thu, Jul 15, 2010 at 4:42 AM, Castaneda, Salvador <span dir="ltr"><<a href="mailto:salvador.castaneda@med.uni-tuebingen.de">salvador.castaneda@med.uni-tuebingen.de</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">SC</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">So that sounds good... i am using AIR though because the
MUT doesnt do anything it gets stuck.... So i am using AIR and 90 for noise
reduction because i heard that's what you have to use for siemens machines....
also affine. tri linear interpolation and standard derivation. So im just
changing the affine and the 90 noise reduction. The images look ok... bu then
again i cant compare it to the MUT because i cant use it. SC, dont you find it
troublesome that when you draw the ROIS in ROIeditor, the roi selected isnt
really what the selection ends up to be? I mean When you are selecting your
pixels and then choose to add as an object, the object you make is not exactly
what you had chosen. Is there anyway to fix this? i tried reducing the pencil
diameter or doing a fill in the roi and then adding but it always looks kinda
crappy... it's still better than picking the ROIS from dtistudio though... I
also heard that you can edit your rois importing the images from Dtistudio into
ImageJ but i dont know how to do this. Maybe i would try it because in there you
can import the anatomy sequences to draw your rois on top of
them.</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">anyway, any input in any of these inquiries would be
helpful!</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">best regards</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">Salvador</font></span></div><br>
<div lang="de" dir="ltr" align="left">
<hr>
<font face="Tahoma" size="2"><div class="im"><b>Von:</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>Im Auftrag von
</b>[Seongjin]<br></div><b>Gesendet:</b> Mittwoch, 14. Juli 2010 14:47<div><div></div><div class="h5"><br><b>An:</b>
DTI Studio, ROI Editor, DiffeoMap Questions/Support<br><b>Betreff:</b> Re:
[Mristudio-users] crash when saving ROI's<br></div></div></font><br></div><div><div></div><div class="h5">
<div></div>
<div>Salvador,</div>
<div><br></div>What I know about difference between AIR and Mutual info based
(MUT) registration, AIR is somewhat sensitive to noise level and has more
options to be determined. What I heard from developer group about the noise
level in AIR is that the noise level should be determined by empirical way. And
it has more options for fitting methods. But which one works better, you should
decide after a couple of trial and errors.
<div>MUT has less option to be determined by user. MUT is based on information
entropy maximization as far as I know. It is one of the good registration
methods. But I have no idea about which one is better between AIR or MUT. I
prefer to use MUT because less user options, which means it is more automatic.
At least, I don't need to play with it to find a proper noise level for
AIR. </div>
<div><br></div>
<div>Best,</div>
<div>-SC<br><br>
<div class="gmail_quote">On Wed, Jul 14, 2010 at 7:09 AM, Castaneda, Salvador
<span dir="ltr"><<a href="mailto:salvador.castaneda@med.uni-tuebingen.de" target="_blank">salvador.castaneda@med.uni-tuebingen.de</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="padding-left:1ex;margin:0px 0px 0px 0.8ex;border-left:#ccc 1px solid">
<div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">SC</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">Sorry
again, Do you know if there is such a big difference between the mutual image
registration and the automatic. And what exactly does this do just improve the
quality of the image all together or what?</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">thanks in
advanced</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">Salvador
Castaneda</font></span></div><br>
<div lang="de" dir="ltr" align="left">
<hr>
<font face="Tahoma" size="2"><b>Von:</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>Im Auftrag von
</b>Castaneda, Salvador<br><b>Gesendet:</b> Mittwoch, 14. Juli 2010 12:14
<div>
<div></div>
<div><br><b>An:</b> DTI Studio, ROI Editor,DiffeoMap
Questions/Support<br><b>Betreff:</b> Re: [Mristudio-users] crash when saving
ROI's<br></div></div></font><br></div>
<div>
<div></div>
<div>
<div></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">SC</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">Thats
exactly what i do, i take the image files from dtistudio and load them in the
roi editor. i wanted to upload an anatomical picture to better draw y rois
because i work with rats. is it possible to dothis even if the matrix and fov
are not the same?</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2">thanks</font></span></div>
<div dir="ltr" align="left"><span><font face="Arial" color="#0000ff" size="2"></font></span> </div><br>
<div lang="de" dir="ltr" align="left">
<hr>
<font face="Tahoma" size="2"><b>Von:</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>Im Auftrag von
</b>[Seongjin]<br><b>Gesendet:</b> Mittwoch, 14. Juli 2010 01:45<br><b>An:</b>
DTI Studio, ROI Editor, DiffeoMap Questions/Support<br><b>Betreff:</b> Re:
[Mristudio-users] crash when saving ROI's<br></font><br></div>
<div></div>
<div>Darren,</div>
<div><br></div>I experienced the similar problem. I wanted to use ROI drawn in
ROI panel but it did not work at all. ROI saving and loading functions seem to
work in FIBER panel, but not in the ROI panel.
<div><br></div>
<div>If you want to use ROI for DTI metrics such as FA or ADC measurements, I
recommend ROIeditor (a companion tool to DTIstudio). That is more
powerful. </div>
<div><br></div>
<div>I always process data in DTI studio. Then load all the processed data
into ROI editor. </div>
<div>Finally, do the measurement with ROI editor. </div>
<div><br></div>
<div>The saved ROIs can be reused in the DTI studio for fiber tracking.
However, again, the ROIs could not be used in ROI panel of the DTI studio on
my computers (home computer, laptop, and office computer). </div>
<div><br></div>
<div>I hope this experience might be a bit of help for your problem in using
DTI studio.<br>
<div><br></div>
<div>-SC<br><br>
<div class="gmail_quote">On Tue, Jul 13, 2010 at 5:28 PM, Darren Gitelman <span dir="ltr"><<a href="mailto:d-gitelman@northwestern.edu" target="_blank">d-gitelman@northwestern.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="padding-left:1ex;margin:0px 0px 0px 0.8ex;border-left:#ccc 1px solid">Hi<br><br>I
am having problems with DTI studio crashing when trying to save ROI's.
<br><br>This happens after I draw an ROI and click the save button. Then a
dialog (ROI File Format) comes up giving a choice of different formats. I
choose Graphic Compatible (default). After clicking OK, a crash window comes
up a few seconds later. It is labeled MriView3D MFC application. The only
technical information I can find is the following.<br><br>AppName:
dtistudio-latest-x86.exe AppVer:
1.0.0.1 ModName: msvcr80.dll<br>ModVer:
8.0.50727.4053 Offset: 00014458<br><br>This occurs
whether I have drawn 1 or more ROIs. (fixed size ROI, oval).<br>The size of
the ROI does not matter (4 voxel or 10 voxel)<br>It occurs with DTI studio
x86 and x64. <br>It occurs with versions 3.0.2 and 2.4.1 of DTIstudio.<br>It
occurs whether I have a complete dataset loaded 35 directions, or even if I
load just 1 image and draw an ROI on it.<br>It occurs on an HP core duo 2
system running Windows XP SP3, and on a redhat linux KVM virtual machine
running windows XP x64.<br>Reinstalling vcredist_x86 or vcredist_x64 from
the DTIstudio website does not help on any of the systems.<br><br>Any
suggestions on how to fix?<br><font color="#888888"><br>Darren<br></font><br>_______________________________________________<br>mristudio-users
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