Reliability and sensitivity of two whole-brain segmentation approaches − ASEG and SAMSEG
External Email - Use Caution
A new pre-print paper comparing two FreeSurfer’s whole-brain segmentation methods - ASEG and SAMSEG is now available (see the link below). The study is of great interest to many researchers in the field, providing new insights and guiding the selection of the processing method.
External Email - Use Caution
Hi Donatas,
I've read your full paper and it is very interesting. During my investigation on the use of SAMSEG and ASEG for AD/MCI patients, I've found some unexpected behaviors. I'm using the 7.2 version of Freesurfer and I've realized that I get different results using the same data but when I run the SAMSEG multiple times (on the same patient). This doesn't happen with ASEG.
Differently from using ASEG, SAMSEG provides also the chance to execute the code using multiple threads.
In the first run I've executed SAMSEG on ADNI patient id 002_S_0685 using the MP-RAGE series having ID I18211 (the link below provides the NIFTI version of the series which has been used for the processing). This patient is part of ADNI dataset.
https://secure-web.cisco.com/1KGFjZ54FVizRaBAYNTLAcv85dT0_beezGbs4UoaUZ1cTiA... https://secure-web.cisco.com/1KGFjZ54FVizRaBAYNTLAcv85dT0_beezGbs4UoaUZ1cTiAMhZAR-GM0mZREUuyafaa4hndgos5M4uRnTMs6hkKM7klAHWb_uqxvnO8aQCcrZGGS0D49MR9NL-iDHp-G3_IZ7pC6PscN4A9gcIE2LoSyzVTao33yqp37uZ1qw0sL-YPTllLWayJ4cZvm-IkMJ-cYT-lsmmbkKopS2kdx0iCMB1oWDsE3JXqNiZmM-Xu-8uMmhpg3V0lvtbrZENBuUEWcI1ZVgVVGwTt7duMprlxkKZ8lT6gZKF2bU6BMELkMdmGU_AWZZGfmsdYpa3AHwcYgi7jCW4vK8mO7otukXlg/https%3A%2F%2Fdrive.google.com%2Fdrive%2Ffolders%2F15oghna17Qz-OSuo9E3-rldOt935AEEuO%3Fusp%3Dsharing
The first execution of SAMSEG was with default settings (1 thread) and results are attached, the second was using --threads 6.
These results from the SAME series are similar but they are NOT the same.
Do you have an explanation for that?
Regards
External Email - Use Caution
Hi Donatas,
I've read your full paper and it is very interesting. During my investigation on the use of SAMSEG and ASEG for AD/MCI patients, I've found some unexpected behaviors. I'm using the 7.2 version of Freesurfer and I've realized that I get different results using the same data but when I run the SAMSEG multiple times (on the same patient). This doesn't happen with ASEG.
Differently from using ASEG, SAMSEG provides also the chance to execute the code using multiple threads.
In the first run I've executed SAMSEG on ADNI patient id 002_S_0685 using the MP-RAGE series having ID I18211 (the link below provides the NIFTI version of the series which has been used for the processing). This patient is part of ADNI dataset.
https://secure-web.cisco.com/17-NqRPTAKNaVCf_i6zhkdra4uObi5n9QwHlBaAsfxUilF3... https://secure-web.cisco.com/17-NqRPTAKNaVCf_i6zhkdra4uObi5n9QwHlBaAsfxUilF3YlRCCMnG3JWzp7vK6jLC93IssuFIawxv6AiuG07kkilM8R6uINFjkrDH88uafjcSNKfZaf_hh3l_JWeYzYT9UKCPn3mtP3yzw4fWfPczuXqpfclCm4vKIRu6oJlFJwsNo_YAP_QoAagY3LZU4UoxJnSOkZs5tP-eRBVqkzLf8Kn7_GD0OE2tUggJ9bOM6yjRATNqC6aA9Ndb_9z7uzxZOMAFfPZC2WaXdAT_aZA4bubzLI5D1JFQagC9J2VCxatC0tfvTleHPMUxuaxvon4MdteS5Mp2YWlz7RmWP7Mg/https%3A%2F%2Fdrive.google.com%2Fdrive%2Ffolders%2F15oghna17Qz-OSuo9E3-rldOt935AEEuO%3Fusp%3Dsharing
The first execution of SAMSEG was with default settings (1 thread) and results are attached, the second was using --threads 6.
These results from the SAME series are similar but they are NOT the same.
Do you have an explanation for that?
Regards
We did fix this at some point. Can you try running the 7.3 version to see if you get the same results? Often multiple threads will yield different results unless specifically programmed otherwise.
On 8/27/2022 4:41 AM, Giulio Siracusano wrote:
External Email - Use Caution
Hi Donatas,
I've read your full paper and it is very interesting. During my investigation on the use of SAMSEG and ASEG for AD/MCI patients, I've found some unexpected behaviors. I'm using the 7.2 version of Freesurfer and I've realized that I get different results using the same data but when I run the SAMSEG multiple times (on the same patient). This doesn't happen with ASEG.
Differently from using ASEG, SAMSEG provides also the chance to execute the code using multiple threads.
In the first run I've executed SAMSEG on ADNI patient id 002_S_0685 using the MP-RAGE series having ID I18211 (the link below provides the NIFTI version of the series which has been used for the processing). This patient is part of ADNI dataset.
*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://drive.google.com/drive/folders/15oghna17Qz-OSuo9E3-rldOt935AEEuO?usp... https://secure-web.cisco.com/17-NqRPTAKNaVCf_i6zhkdra4uObi5n9QwHlBaAsfxUilF3YlRCCMnG3JWzp7vK6jLC93IssuFIawxv6AiuG07kkilM8R6uINFjkrDH88uafjcSNKfZaf_hh3l_JWeYzYT9UKCPn3mtP3yzw4fWfPczuXqpfclCm4vKIRu6oJlFJwsNo_YAP_QoAagY3LZU4UoxJnSOkZs5tP-eRBVqkzLf8Kn7_GD0OE2tUggJ9bOM6yjRATNqC6aA9Ndb_9z7uzxZOMAFfPZC2WaXdAT_aZA4bubzLI5D1JFQagC9J2VCxatC0tfvTleHPMUxuaxvon4MdteS5Mp2YWlz7RmWP7Mg/https%3A%2F%2Fdrive.google.com%2Fdrive%2Ffolders%2F15oghna17Qz-OSuo9E3-rldOt935AEEuO%3Fusp%3Dsharing
The first execution of SAMSEG was with default settings (1 thread) and results are attached, the second was using --threads 6.
These results from the SAME series are similar but they are NOT the same.
Do you have an explanation for that?
Regards
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Donatas Sederevicius -
Douglas N. Greve -
Giulio Siracusano