Re: [Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-16 Thread Janosch Linkersdörfer
Dear Martin and Bruce, thank you very much for your detailed answers! This helps a lot! Best, Janosch Am 15.01.2014 um 21:53 schrieb Martin Reuter : > Hi Janosch, > > there is no fixed naming convention for subjectids from our side, only > recommendations. If you like you can call the first

Re: [Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-15 Thread Martin Reuter
Hi Janosch, there is no fixed naming convention for subjectids from our side, only recommendations. If you like you can call the first time point of subject1 'mike' and the second time point of the same subject 'peter' , we don't care, but it would be confusing. We recommend a convention whe

Re: [Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-15 Thread Bruce Fischl
I'll leave this for Martin Bruce On Wed, 15 Jan 2014, Janosch Linkersdörfer wrote: Hi Bruce, thank you very much for your answer! Am 15.01.2014 um 14:33 schrieb Bruce Fischl : Hi Janosch it will certainly make your life easier if you don't change the names. So the subject names are save

Re: [Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-15 Thread Janosch Linkersdörfer
Hi Bruce, thank you very much for your answer! Am 15.01.2014 um 14:33 schrieb Bruce Fischl : > Hi Janosch > > it will certainly make your life easier if you don't change the names. So the subject names are saved in other places/files than the folder name? > Symlinking is fine if you keep the

Re: [Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-15 Thread Bruce Fischl
Hi Janosch it will certainly make your life easier if you don't change the names. Symlinking is fine if you keep the same name, but particularly for the longitudinal runs the names have meaning and are stored in files like the tps one which stores the timepoints that went into the base. chee

Re: [Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-15 Thread Janosch Linkersdörfer
Hi, sorry if my question was to basic, but I would really appreciate if somebody could give me some insight into whether the folder organization and the subject name used in the first run of recon-all have to be stable over all all following processing steps or if one can, e.g., change the name

[Freesurfer] Folder organization cross-sectional/longitudinal analysis

2014-01-13 Thread Janosch Linkersdörfer
Hi all, I have 4 years of structural scans from children and 2 from adults. I would like to analyze the data both cross-sectionally and longitudinally. In the recommendations for the longitudinal analysis, it says one should process all images in one folder with the time point in the subjectID/