Matt and FSL experts,
I will try to run the probtrackx from the command line using your
suggestion.
I also tried mapping the optic tract by using a single mask of the optic
chiasm and the resulting tracks do not look correct. None of them even
reach the occipital cortex, and very few reach LGN. Are thre any general
guidelines for tract mapping in terms of mask seeds? For example, should I
always try to use the symmetric approach you mentioned, or use one mask
that would contain say the chiasm, LGN, and the visual cortex?
Im really struggling with what options to choose and very few of my tracks
come out correct. I would appreciate if someone could walk me trough the
mapping process of one prominent tract (how many masks, wapoints,
exclusion masks).
I appreciate your help,
Anastasia
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