[Mrtrix-discussion] MRstats Specific to the Corticospinal Tract

[Luis Concha]

You can use
tracks2prob -template TDI.mif CST.tck CST_p.mif

However, it puzzles me that you want to extract statistics from
(presumably) ultra-high resolution images. FA values should, in my opinion,
be extracted from the original FA maps. On the other hand, it has been
suggested that track densities are not something that is a quantifiable
parameter for between-group analyses. I am hoping this opinion has changed
and/or that some new way of analysis of TDI is available. Perhaps others
can pitch in.

Luis



On Thu, Jul 5, 2012 at 4:39 PM, Kirles Bishay <kirles at ualberta.ca> wrote:

> Hello,
>
> I am currently trying to get statistics specifically on the corticospinal
> tract of my whole brain TDI images. So far, I have tried to create a mask
> of just the CST to apply to the whole brain image by using the tractography
> function in MRtrix, turning it into a TDI image, using ImageJ software
> to convert the TDI image into a mask and then applying the mask back
> in MRtrix to specify my ROI for the statistics function. While this works
> well with the TDI image of just the CST, it does not work with the whole
> brain image because the dimensions of the images are different. This is
> because the dimensions created with my ROI tractography differ from the
> dimensions of the whole brain tractography. I have tried to change the
> dimensions of my mask image using ImageJ, but I think this warps the mask
> inapropriately. Is there a way to control the output dimensions of the
> tractography images so that I can match the CST mask to my TDI image? Or do
> you have any other suggestions to get the data on the CST in my whole brain
> images that I have not thought of?
>
> Thank you,
>
> Kirles
>
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