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faskowit / multiAtlasTT

multi atlas transfer tools for neuroimaging (maTT)
MIT License
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linking multiAtlasTT to connectome2tck #11

Closed pinilorenzo closed 2 years ago

pinilorenzo commented 3 years ago

Hi Josh

Do you have any advice for using the results of your code in connectome2tck to create whole-brain connectome in different atlas space (e.g., Schaefer). Specifically, it is possible to use labelconvert with txt output from maTT2?

Thanks L

faskowit commented 3 years ago

Hello,

Just to make sure, you are referring to the MRTrix functions, right? Also, might you be referring to tck2connectome, as opposed to connectome2tck? In principle, indeed you can use the output of maTT2 for structural connectomics. For measuring structural edge connections, you might try to dilate the output parcellation or mess around with the -assignment_radial_search parameter to make sure that most of your streamlines get assigned to a node. I have never tried using labelconvert...so I would not know... It might not even be necessary though, since the outputs are already mapped 1-N.

--Josh