[Freesurfer] Longitudinal processing clarification

2010-02-01 Thread Derin Cobia
(Questions for all, but maybe more directed towards Martin) I have some questions about manual edits in regard to the longitudinal stream. Based on the current info on the wiki page, it appears that no edits are pushed forward from the cross-sectional (initial) runs of the subject data, as any

[Freesurfer] Longitudinal processing clarification

2010-02-12 Thread Derin Cobia
Bumping this back up to the list. Could someone please address? To be more concise, during longitudinal processing, where are wm/gm edits made? On the cross-sectional runs, to the base, or on the .long. runs themselves? Thanks. -Derin Begin forwarded message: > From: Derin Cobia > Date:

Re: [Freesurfer] Longitudinal processing clarification

2010-02-12 Thread Nick Schmansky
edits should be made to the cross-sectional subjects and the base subjects. edits do not need to be made to the longitudinal runs, as they will be transferred from the cross-sectional subject run. the base subject does not get edits transferred from the composing set of cross-sectional subjects b

Re: [Freesurfer] Longitudinal processing clarification

2010-02-12 Thread Martin Reuter
Hi Derin, this is how I see it: The base might need edits and if it does, they should be made. As you say, the surfaces of the longitudinal runs are initialized with the surface of the base, so, if it is not correct, this will pollute all time points. Another reason to edit the base is that wm e

Re: [Freesurfer] Longitudinal processing clarification

2010-02-14 Thread Mehul Sampat
Hi Nick (and Martin) Could you please clarify if the edits come only from the base or if they are copied from the cross-sectionals ? It would be great if I only had to make edit in the base . We have 5 timepoints for each subject (each a year apart) and i want to use the results from the longit

Re: [Freesurfer] Longitudinal processing clarification

2010-02-16 Thread Nick Schmansky
You can edit just the base if you will only be working with the longitudinal stream. Currently, running the cross-sectional stream is necessary only to get the 'norm.mgz' file, for input to the base subject. n. On Sun, 2010-02-14 at 14:06 -0800, Mehul Sampat wrote: > Hi Nick (and Martin) > > C