[Mristudio-users] Saving fiber in data file

[Zhang, Aifeng]

Dear Dr. Mori

Thanks a lot for the guidance.
Because I am interested in doing further analysis like curvature and torsion on the fiber bundles[1], I am curious about how DtiStudio bundle fibers together. And I found that in the saved fiber tracking results from DtiStudio with the option of Fiber Color as Random, it already assign fibers with RGB colors. Does each bundle assign with unique combination of RGB colors?  I am wondering if there is an algorithm that DTIstudio uses to bundle similar fibers together, like the one listed in the following paper.  and if the color is the only way to differentiate different bundles?

[1] Ding Z<http://www.ncbi.nlm.nih.gov/pubmed?term=%22Ding%20Z%22%5BAuthor%5D>, Gore JC<http://www.ncbi.nlm.nih.gov/pubmed?term=%22Gore%20JC%22%5BAuthor%5D>, Anderson AW<http://www.ncbi.nlm.nih.gov/pubmed?term=%22Anderson%20AW%22%5BAuthor%5D>. "Classification and quantification of neuronal fiber pathways using diffusion tensor MRI". Magn Reson Med.<javascript:AL_get(this,%20'jour',%20'Magn%20Reson%20Med.');> 2003 Apr;49(4):716-21.

Sincerely,
Aifeng

From: mristudio-users-bounces at mristudio.org [mailto:mristudio-users-bounces at mristudio.org] On Behalf Of susumu mori
Sent: Thursday, June 17, 2010 7:16 AM
To: DTI Studio, ROI Editor, DiffeoMap Questions/Support
Subject: Re: [Mristudio-users] Saving fiber in data file

you can assign a color for each bundle that share the same ROI.

For example, you can first choose "red" and draw first ROI. Then all reconstructed streamlines are painted red. Then choose "yellow" and "AND+" tool. Draw another ROI for a portion of the reconstructed streamlines. Those lines penetrates the second ROI becomes yellow while the other lines stay red.

You can save this results and the file format is explained in FAQ#1 in www.mristudio.org<http://www.mristudio.org>.

Another way is to reconstruct whatever the tracts you want in red and save it. You can reconstruct the second tract independently using yellow and save it.

After all the reconstructions are done and saved, you can load them back to DtiStudio. In this way, you can show multiple tracts with different colors.

Susumu
On Wed, Jun 16, 2010 at 10:49 PM, Zhang, Aifeng <azhang at psych.uic.edu<mailto:azhang at psych.uic.edu>> wrote:
Dr. Mori

Does each fiber bundle has an unique RGB FiberColor? Is it the way to identify fiber bundles?

and also where can I find the description about the method of grouping fiber bundles?  Thanks!

Sincerely,
Aifeng
________________________________
From: mristudio-users-bounces at mristudio.org<mailto:mristudio-users-bounces at mristudio.org> [mristudio-users-bounces at mristudio.org<mailto:mristudio-users-bounces at mristudio.org>] On Behalf Of susumu mori [susumu at mri.jhu.edu<mailto:susumu at mri.jhu.edu>]
Sent: Tuesday, June 15, 2010 7:30 PM
To: DTI Studio, ROI Editor, DiffeoMap Questions/Support
Subject: Re: [Mristudio-users] Saving fiber in data file
I hope FAQ#1 (https://www.mristudio.org/wiki/faq) answers the question.

susumu
On Tue, Jun 15, 2010 at 7:33 PM, Zhang, Aifeng <azhang at psych.uic.edu<mailto:azhang at psych.uic.edu>> wrote:
Dear DtiStudio,

I am trying to save the fiber tracking results into data file for further analysis.  The binary file lost the fiber direction information.  I am wondering if DtiStudio format keeps the coordinates and direction info for each single fiber.  If so, where can I locate the structure of the DtiStudio format?  thanks.

Sincerely!
Aifeng

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