Hi,
I have a question regarding DTI image, which may be very basic.
I generated DTI image, FA map from diffusion weighted images using FSL. I also have ROI files (brainstem region/ hippocampus region) for the same data. Now I want to generate some quantitative values from a ROI.
How can i get the information (number of fibers, length of fibers, and other relevant information) from a particular ROI using FSL or MATLAB or any other tools which supports nifit files?
I am new in this area of research. Any help will be really appreciated.
Thank you.
With FA-maps you could select a ROI and estimate the average of FA (with fslmaths or convert3d from ITKsnap or ITKsnap). To fibers length you need a tractography step, in that case use MedINRIA, 3dSlicer, of FSL FDT-diffusion.
Regards!
Perhaps the following tutorial could be useful or look for similar ones on this site.
Fast manual lesion segmentation in ITKsnap
https://www.youtube.com/watch?v=ZVmINdWk5R4
Regards
You can use TrackVis to obtain the number of white fiber, as well as the mean length and the volume based on a whole brain level or ROI based level.@Rahul Paul
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