Dear experts,
I am potentially also interested in correct using of -T2pial feature with
longitudinal stream.
The first (standard cross-sectional) and third step (-long ) was already
elaborated here, but I am, however, not sure how to process by T2pial in the
second step ( -base), which creates the unbiased template and process it by
(almost) standard cross-sectional stream. I did not find creation of unbiased
template of T2 in the recon-all code.
Therefore, in order to use -T2pial on -base run, I would probably need to
create my T2 template by calling mri_robust_template on my T2's first, and
then pass the created T2 template as input to recon-all -base run, like:
recon-all -base <templateid> -tp <tp1id> -tp <tp2id> ... -all -T2pial -T2
path_to_T2_template
I am correct?
Regards,
Antonin
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