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PennLINC / qsiprep

Preprocessing of diffusion MRI
http://qsiprep.readthedocs.io
BSD 3-Clause "New" or "Revised" License
140 stars 57 forks source link

Custom atlas #134

Closed araikes closed 4 years ago

araikes commented 4 years ago

I know that we can use custom atlases. I have an atlas file that is a fusion of the Schaefer 400x17 atlas and Brainnetome's subcortical gray ROIs.

Do you have any stock code for conforming it to the necessary orientation for QSIPrep's reconstruction? I know that I'd need to do the legwork on importing all of the ROI names.

mattcieslak commented 4 years ago

Have you seen this section?

araikes commented 4 years ago

I have. My image is RAS and doesn't have a zeroed out sform. I was just hoping you had ready-made code for making sure it was conformed so I didn't need to reinvent it.

I'll work on it.

araikes commented 4 years ago

Got it done and working.

rtybanana commented 3 years ago

Hi @araikes

Can you share details on how you got this to work? I'm in the same position as you and would like to use an atlas that's in RAS format.