Recommended workflow for running with real data?

[pjkohler]

Hi All,

This framework looks amazing. We are looking to use it on real data, collected in the Kohlerlab. I am a bit unsure how to approach that, however. Should I emulate the folder structure produce by prf-Synthesize? What if my data have already been preprocessed using fMRIPrep - in that case, the input to prf-analyze would typically live inside the derivatives folder - which is not consistent with the prf-Synthesize structure.

Any pointers would be appreciated.

Best,

Peter

[garikoitz]

Hi Peter! Thanks for your interest in the tool. We have been preparing another container that is called prf-prepare, and maybe it is better to start with this . If you use heudiconv for example for conversion from dicom to nifti, you will be able to use prfPRepare and the rest of the gears from there. If you are interested please let me know ***@***.***) and we can go from there. Thanks again! Gari

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On Tue, Jun 20, 2023 at 12:10 PM Peter J. Kohler ***@***.***> wrote: Hi All, This framework looks amazing. We are looking to use it on real data, collected in the Kohlerlab. I am a bit unsure how to approach that, however. Should I emulate the folder structure produce by prf-Synthesize? What if my data have already been preprocessed using fMRIPrep - in that case, the input to prf-analyze would typically live inside the derivatives folder - which is not consistent with the prf-Synthesize structure. Any pointers would be appreciated. Best, Peter — Reply to this email directly, view it on GitHub <#91>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABCZAV6I3NBWDC4ZJ6JDZSLXMFZLHANCNFSM6AAAAAAZNBOHAQ> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[pjkohler]

Hi Gari,

We are using HeudiConv, so that sounds amazing! I have sent you an email.

Best,

Peter