Thank you very much Martin for your response. I do understand the statistical analysis ascept, my question was more in line with the last step (i.e. step 4) of the work flow summary (https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing). You suggested we calculate the difference between the timepoints. Is there a command to perform this operation?

Also, will the "-qdec-long" flag replace the "--s" flag because the qdec table will contain the names of the fsid?

Best,

Paul

On Wed, Sep 27, 2017 at 11:38 AM, Martin Reuter <mreuter@nmr.mgh.harvard.edu> wrote:

Hi Paul,

for the statistical analysis take a look at the available options here:

https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalStatistics

for asegstats2table you can use the --qdec-long flag with an appropriate text file containing the columns fsid and fsid-base . This will convince the script to look for the stats in the *.long.basename directories.

Best, Martin

Am 26.09.2017 um 17:50 schrieb miracle ozzoude:
Hello Freesurfer,

For the longitudinal pipeline, the website/ recon-all -help suggested that I calculate the different on the results from the longitudinal command (e.g. tp2.long.longbase - tp1.long.longbase). Let say, my timepoints were named 1001_Baseline.long.longbase and 1001_Followup.long.longbase; is there a command i can use to preform this?

Second question, i want to extract the output of the longitudinal pipeline using asegstats2table and aparcstats2table commands. what flag/s should i include in the original command to perform this?

Thanks.

Paul
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