Re: [Freesurfer] Hippocampal subfields: exporting results

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Dear Eugenio,

I noticed what was the problem. I used freesurfer dev version with the following command:

segmentHA_T2.sh

I tried to export the hippocampal and amygdala results of several subjects with these commands and now everything works fine.

quantifyHAsubregions.sh hippoSf HIPO-AMY hippocampal_results.txt

quantifyHAsubregions.sh amygNuc HIPO-AMY amygdala_results.txt

Is there some difference between the *segmentHA_T2.sh* that I used and the command of the website? In that case I would like to use the most appropriated.

recon-all -s <subject_name> *-hippocampal-subfields-T2* <file name of additional scan> <analysisID>

Thanks in advance.

Best regards,