Dear Freesurfer users and experts, for the first time we used TRACULA 5.1.0 to visualize the tracts of our test persons and now we did the update to TRACULA 5.2.0. We did a rerun of the trac-all logarithm for all test persons in order to achieve better TRACULA results. At one point we had patient with good TRACULA outputs (all tracts are complete) by using 5.1.0 but the same person had a worse TRACULA output by using 5.2.0. There have also bin test persons that recieve good tract result with TRACULA 5.2.0. than with 5.1.0. Now we would like to know if we can use TRACULA 5.1.0 data for one person with good tracts and for another person TRACULA 5.2.0 data with good tracts as well but both with worse tracts when using the different TRACULA version? Summarizing we would like to know if we can mix the data analysis with data from TRACULA 5.1.0 and 5.2.0?
Kind regards Benjamin
PS: I have sent you another message on the sixth of May. Can you help me with this problem as well?
Hi Benjamin - The tractography algorithm running under the hood hasn't changed from 5.1 to 5.2, but the way the initial guess for the path is chosen that's fed into the algorithm has changed. Also several defaults for the registration method, number of samples, number of control points have changed. So I'd check what those parameters were for your 5.1 and 5.2 results, and if one of those configuration choices seems to work better, use that. But just to be safe, I'd use the same version for all subjects, simply b/c it's possible that some libraries with which the code was compiled may have changed between freesurfer 5.1 and 5.2 and you don't want to introduce that kind of variability.
Hope this helps, a.y
On Thu, 16 May 2013, Roschinski, Benjamin wrote:
Dear Freesurfer users and experts, for the first time we used TRACULA 5.1.0 to visualize the tracts of our test persons and now we did the update to TRACULA 5.2.0. We did a rerun of the trac-all logarithm for all test persons in order to achieve better TRACULA results. At one point we had patient with good TRACULA outputs (all tracts are complete) by using 5.1.0 but the same person had a worse TRACULA output by using 5.2.0. There have also bin test persons that recieve good tract result with TRACULA 5.2.0. than with 5.1.0. Now we would like to know if we can use TRACULA 5.1.0 data for one person with good tracts and for another person TRACULA 5.2.0 data with good tracts as well but both with worse tracts when using the different TRACULA version? Summarizing we would like to know if we can mix the data analysis with data from TRACULA 5.1.0 and 5.2.0?
Kind regards Benjamin
PS: I have sent you another message on the sixth of May. Can you help me with this problem as well?
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thank you very much Anastasia for your answers. We will check our parameters and think about it.
kind regards Benjamin ________________________________________ Von: Anastasia Yendiki [ayendiki@nmr.mgh.harvard.edu] Gesendet: Freitag, 17. Mai 2013 18:37 An: Roschinski, Benjamin Cc: freesurfer@nmr.mgh.harvard.edu; gerit.pfuhl@gmail.com Betreff: Re: [Freesurfer] data analysis
Hi Benjamin - The tractography algorithm running under the hood hasn't changed from 5.1 to 5.2, but the way the initial guess for the path is chosen that's fed into the algorithm has changed. Also several defaults for the registration method, number of samples, number of control points have changed. So I'd check what those parameters were for your 5.1 and 5.2 results, and if one of those configuration choices seems to work better, use that. But just to be safe, I'd use the same version for all subjects, simply b/c it's possible that some libraries with which the code was compiled may have changed between freesurfer 5.1 and 5.2 and you don't want to introduce that kind of variability.
Hope this helps, a.y
On Thu, 16 May 2013, Roschinski, Benjamin wrote:
Dear Freesurfer users and experts, for the first time we used TRACULA 5.1.0 to visualize the tracts of our test persons and now we did the update to TRACULA 5.2.0. We did a rerun of the trac-all logarithm for all test persons in order to achieve better TRACULA results. At one point we had patient with good TRACULA outputs (all tracts are complete) by using 5.1.0 but the same person had a worse TRACULA output by using 5.2.0. There have also bin test persons that recieve good tract result with TRACULA 5.2.0. than with 5.1.0. Now we would like to know if we can use TRACULA 5.1.0 data for one person with good tracts and for another person TRACULA 5.2.0 data with good tracts as well but both with worse tracts when using the different TRACULA version? Summarizing we would like to know if we can mix the data analysis with data from TRACULA 5.1.0 and 5.2.0?
Kind regards Benjamin
PS: I have sent you another message on the sixth of May. Can you help me with this problem as well?
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Anastasia Yendiki -
Roschinski, Benjamin