Hello

I have just started to use FreeSurfer (version 4.5) and have some questions on the longitudinal stream:

I have started to process cross-sectionally all time points (7 tp) of my patients with the following script:

recon-all –i tpidN.nii –subjid tpidN –all

Then, created an unbiased template from all time points for each subject and process it with recon-all with the following script:

recon-all -base <templateid> -tp <tp1id> -tp <tp2id> ... -all

and finally did the longitudinal process to all time points with the following script:

recon-all -long <tpNid> <templateid> -all

I would like to know if what I have been doing till this final step is correct or not?

I would like also to know how we could calculate the differences between tpid1.long.template and tpid2.long.template for example? And is there any automatic way to do so?

Thank you for your help

Sincerely

Nadia