I hope FAQ15 in this page (<a href="https://www.mristudio.org/wiki/faq">https://www.mristudio.org/wiki/faq</a>) will help.<br><br><div class="gmail_quote">On Fri, Jan 14, 2011 at 2:03 PM, Varin Tsai <span dir="ltr"><<a href="mailto:varintsai@gmail.com">varintsai@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>
<br>
I have a question on file conversion and Siemens Mosaic files. I<br>
recently received a patient for processing whos files came in Siemens<br>
Mosaic. After having ran through such protocols as DCM2NII.gui, I had a<br>
30 direction set of files that, when run through Diffusion<br>
Toolkit/Trackvis, yielded me a 6x6 matrix view of the transaxial cuts of<br>
the brain. I ran this through DTI studios because of its actual Siemens<br>
Mosaic protocol and was able to (with the right gradient table) create a<br>
semi-usable FA map. The problem is that while DTI studios gave me a<br>
representation of the brain, the coronal and sagittal views are<br>
upside-down and inverted. I'd like to know if anybody had thoughts on<br>
reorienting those views of the brain.<br>
<br>
I had tried going through Vinci 2.54.0 to use Magic Tool (for those not<br>
acquainted, Magic Tool allows you to tilt and rotate images how you<br>
please in order for them to fit your needs), however if I try to rotate<br>
the sagittal cut, the rest of the cuts are affected such that the<br>
transaxial cut will be flipped - they are, as expected, linked.<br>
<br>
If anyone could provide any insight on either using DTI studios to<br>
correctly convert the Siemens Mosaic files into usable directions for<br>
tractography purposes (either in DTI studios or Diffusion<br>
Toolkit/Trackvis), I'd greatly appreciate it. Thanks!<br>
<font color="#888888"><br>
Varin Tsai<br>
</font><div><div></div><div class="h5"><br>
On 1/14/2011 10:51 AM, Sourena Soheili wrote:<br>
> Dear Mojdeh<br>
> Are you iranian? Cuz I'd like to find someone with my nationality here<br>
> for consult.<br>
> Sourena<br>
><br>
> On Thursday, January 6, 2011, Mojdeh<<a href="mailto:zamyadim@sri.utoronto.ca">zamyadim@sri.utoronto.ca</a>> wrote:<br>
>> Hi all :)<br>
>> I finally managed to successfully run and download the results of my<br>
>> first LDDMM job ... now I have a question about viewing the output<br>
>> transformations. In the manual located @<br>
>> <a href="https://www.mristudio.org/wiki/user_manual/diffeomap/MultichannelVolumeLDDMM" target="_blank">https://www.mristudio.org/wiki/user_manual/diffeomap/MultichannelVolumeLDDMM</a><br>
>> , it's mentioned that "output transformation matrix can be loaded by<br>
>> clicking the load button under the Volume LDDMM menu and can be saved<br>
>> Raw format. However, in my DiffeoMap there is only one "Retrieve Results<br>
>> > From Remote Volume LDDMM" which can only be used for retrieving the data<br>
>> and not loading them! Could you please advise me on how to access the<br>
>> raw transformations and also how to view the "transformed target" image?<br>
>> Thanks for the help,<br>
>> Mojdeh<br>
>><br>
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