Dear Freesurfer Ninjas,

I have been playing around with the new beta version, and am very interested in the -FLAIRpial option. I have been using this successfully on cross-sectional runs, but would like to extend it to cross sectional runs.

I have played around with trying to get this to work, including copying FLAIRconf.mgz to the longitudinal run directions (subjid.long.template) and the recon-alll -long command with -FLAIRpial. Although this runs, it produces cortical thickness estimates that appear underestimated on visual inspection.

Is there a better way to incorporate -FLAIRpial on longitudinal runs? Is it even possible at this stage?

Many thanks for your time,

- Charles

--
Charles Malpas 

Master of Psychology (Clinical Neuropsychology) / PhD Candidate
Melbourne School of Psychological Sciences & Department of Medicine (RMH)

The University of Melbourne 3010

Melbourne Brain Centre @ RMH

Neuropsychiatry Research Group 

Level 4, Main Building, Royal Melbourne Hospital
Phone: 0451 116 434
Email: c.malpas@student.unimelb.edu.au
Skype: charles.malpas

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