phase encoding direction for PreFreeSurferPipeline.sh

[Yonatan Abrham]

Greetings,

I'm using the HCP Early Psychosis data and I'm new for the HCP Pipelines. I'm at the first stage running PreFreeSurferPipeline.sh. What value should I put for --seunwarpdir flag?

I'm passing in both spin echo field maps (the AP and PA with phase encoding direction j and j-).

Thank you,

Yonatan

[Glasser, Matt]

j would be fine.

Matt.

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[Yonatan Abrham]

Thanks Matt