Hi Catherine,

running them with the normal recon-all command is the first step of the longitudinal pipeline, then create the 'base' (subject template) for each subject and finally run all individual time points again through the -long command.

see
https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing

for the description,

Best, Martin

On 09/02/2013 10:51 PM, Rongxiang Tang wrote:

Hi All,

This may seem to be an easy question, I would just like to confirm...

I have two groups that underwent different types of training and were measured at two time points (before and after training).

My understanding is that I should use the longitudinal scheme in freesurfer to run recon-all?

I have processed all data using normal recon-all command, and was wondering if I should rerun them all with the longitudinal command:
recon-all -subjid <tpNid> -all

Thanks in advance,
Catherine
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Martin Reuter, Ph.D.
Assistant in Neuroscience - Massachusetts General Hospital
Instructor in Neurology   - Harvard Medical School
MGH / HMS / MIT

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