[Mristudio-users] more DiffeoMap questions

[susumu mori]

I hope FAQ15 in this page (https://www.mristudio.org/wiki/faq) will help.

On Fri, Jan 14, 2011 at 2:03 PM, Varin Tsai <varintsai at gmail.com> wrote:

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