Hello !
I work for the department of Anatomy (http://www.medecine.unige.ch/GRAC/) in the Centre Médical Universitaire of the Université de Genève (http://www.unige.ch/).
We're planning to use the FreeSurfer software suite (or more precisely, the surface-based stream ) in a project that aims to synthesize brain models for teaching through rapid-prototyping (like 3D-printing) out of brain MRI, thus by-passing and giving an alternative to using dead human bodies for teaching.
I have 2 questions relative to this project : - Does anyone here have recommendations (or references) about MRI sequence parameters to obtain best contrast for optimal segmentation ? Our preliminary test data wasn't top quality indeed, and we're planning to obtain new datasets. Does anyone has some tips to give us ?
- The download page mentions that the source code will be soon released (https://surfer.nmr.mgh.harvard.edu/fswiki/Download?action=highlight&valu...), but that we'll have to wait until all non-releasable modules are replaced with open-source-able ones. How far has the OS'ing effort gone until now ? Most specifically, which modules are already OS'able ? And how much effort remain to be done ? When will we see an OS'ed version ? Under what license are those sources going to be released ? (GPL, BSD, other ?)
Thank you and have a nice day.
- Ivan Topolsky -
Ivan,
In response to your first question about sequence parameters for optimal segmentation, we achieve optimal gm/wm segmentation using the MP-RAGE sequence protocol. For info, see Data Requirements section of this page:
https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferBeginnersGuide
which should lead you down to this page of parameters used for structural imaging:
http://www.nmr.mgh.harvard.edu/~andre/Sequences/SagMPR8Min.html
In response to the open-source questions, we are at least six weeks away from finally releasing the open source code. The license it will follow is this:
https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferOpenSourceLicense
Nick
On Thu, 2006-06-01 at 16:46 +0200, Ivan Blagoev Topolsky wrote:
Hello !
I work for the department of Anatomy (http://www.medecine.unige.ch/GRAC/) in the Centre Médical Universitaire of the Université de Genève (http://www.unige.ch/).
We're planning to use the FreeSurfer software suite (or more precisely, the surface-based stream ) in a project that aims to synthesize brain models for teaching through rapid-prototyping (like 3D-printing) out of brain MRI, thus by-passing and giving an alternative to using dead human bodies for teaching.
I have 2 questions relative to this project :
- Does anyone here have recommendations (or references) about MRI
sequence parameters to obtain best contrast for optimal segmentation ? Our preliminary test data wasn't top quality indeed, and we're planning to obtain new datasets. Does anyone has some tips to give us ?
- The download page mentions that the source code will be soon released
(https://surfer.nmr.mgh.harvard.edu/fswiki/Download?action=highlight&valu...), but that we'll have to wait until all non-releasable modules are replaced with open-source-able ones. How far has the OS'ing effort gone until now ? Most specifically, which modules are already OS'able ? And how much effort remain to be done ? When will we see an OS'ed version ? Under what license are those sources going to be released ? (GPL, BSD, other ?)
Thank you and have a nice day.
- Ivan Topolsky -
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
On Thu, 1 Jun 2006, Ivan Blagoev Topolsky wrote:
Hello !
I work for the department of Anatomy (http://www.medecine.unige.ch/GRAC/) in the Centre Médical Universitaire of the Université de Genève (http://www.unige.ch/).
We're planning to use the FreeSurfer software suite (or more precisely, the surface-based stream ) in a project that aims to synthesize brain models for teaching through rapid-prototyping (like 3D-printing) out of brain MRI, thus by-passing and giving an alternative to using dead human bodies for teaching.
I have 2 questions relative to this project :
- Does anyone here have recommendations (or references) about MRI
sequence parameters to obtain best contrast for optimal segmentation ? Our preliminary test data wasn't top quality indeed, and we're planning to obtain new datasets. Does anyone has some tips to give us ?
what type of scanners do you have?
- The download page mentions that the source code will be soon released
(https://surfer.nmr.mgh.harvard.edu/fswiki/Download?action=highlight&valu...), but that we'll have to wait until all non-releasable modules are replaced with open-source-able ones. How far has the OS'ing effort gone until now ? Most specifically, which modules are already OS'able ? And how much effort remain to be done ? When will we see an OS'ed version ? Under what license are those sources going to be released ? (GPL, BSD, other ?)
we're working on it!
Thank you and have a nice day.
- Ivan Topolsky -
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Ivan Blagoev Topolsky -
Nick Schmansky