...to put it more clearly, this is the original message posted in January 2013:
"Dear all,
I'd like to do thalamic segmentation, but I've some methodological questions:
1, Can I use the whole thalamus (left and right together) and the whole cortical mask (e.g. left and right premotor cortex), or do I need to run the probtrackx separately for each hemisphere (e.g. using the left thalamus and left premotor cortex)?
2, Most of the articles use manually delineated masks. Can I use the thalamic segmentation by FIRST as seed?
3, Is it possible to get somehow the standard space masks for the 7 cortical structures most often used for thalamic segmentation? For the right hemispehere there are some masks provided by the fsl practical data, but I don't know how they were generated, and how to generate masks for the left hemisphere also.
Thanks,
Gabor"
My main interest is on question nr 3.
Thank you,
kind regards,
Verena
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