Hi FreeSurfers,

I ran the longitudinal processing pipeline on my subjects, FS 5.0. 

Following the tutorial, first independently, then base, then long etc. Everything works well,  no problems there.

Out of curiosity I compared the asegstats & aparcstats within subject at baseline (i.e. The same timepoint): so the independent fsid vs the same_fsid.long.same_fsid_template, and there are (large) differences between all volumes/thicknesses. The independent measures are in almost all brain areas larger compared to those derived from the longi-stream. Except for the IC, which is completely the same, but of course, this measure is based on the Buckner method and calculated differently.

Overall this seems a bit strange to me, because I believe there shouldn't be differences within subject on the same time-point. 

Is this the result of the within-subject template use for the longitudinal data or is something else going wrong, or is this normal?

Many thanks!

Cheers,

Cédric