Dear FreeSurfers,
I plan to do a cerebellar volume analysis in a rather large clinical sample and thereto originally aimed to follow the instructions of Makris and colleaugues (2003, 2005). Unfortunatly I was not able to get access to all the necessary software and accordingly I am forced to improvise and find another solution. Thus I have a lot of questions:
1. I learned from the mailing list archive that there already have been several requests concerning that topic and that there also have been some plans for labeling parts of the cerebellum (according to an email from David Salat, 07/09/2008)... have any of this plans been completed yet? Because I certainly do not want to reinvent the wheel ;-) .....
2. If not.... to keep as close as possible to the procedures described in Makris and colleaugues (2003, 2005), I originally planned to inflate the surface of the cerebellum (they quote in their papers that there might be a way to do that with Freesurfer, when the cerebellum is segmented in its grey and white matter as it is meanwhile implemented in the conventional aseg procedure??); then I wanted to create a cerebellar parcellation atlas according to its gyral and sulcal pattern in a subset of subject and finally hoped to be able to process the rest of my population largely automatically with the help of this new atlas... does this seem reasonable? And do anyone have experience with tasks like that?
3. But then, I learned again from the mailing list archive that surface extraction of the cerebellum is that hampered (due to the comprehensible resolution issues), that it is completely disadvised. Instead it was recommended (if any) to include respective volume labels in the aseg procedure and to do a volumetric analysis. Is this right? And are there any instructions how I could do that?
4.As I do not have any experience in tasks like that and sometimes tend to overrate myself (;-)) do you think that it might in principal be feasible to do a automatic cerebellar volume analysis or would I generally be better of in trying to do it manually?
Thank you (again :-)) very much for your advise!!
Kind regards
Cindy ___________________________________________________________ WEB.DE DSL: Internet, Telefon und Entertainment für nur 19,99 EUR/mtl.! http://produkte.web.de/go/02/
Hi Cindy,
this is on our to-do list. Maybe David can give you an update as to where we are?
cheers, Bruce
On Thu, 4 Mar 2010, Cindy Eckart wrote:
Dear FreeSurfers,
I plan to do a cerebellar volume analysis in a rather large clinical sample and thereto originally aimed to follow the instructions of Makris and colleaugues (2003, 2005). Unfortunatly I was not able to get access to all the necessary software and accordingly I am forced to improvise and find another solution. Thus I have a lot of questions:
- I learned from the mailing list archive that there already have been several requests concerning that topic and that there also have been some plans for labeling parts of the cerebellum (according to an email from David Salat, 07/09/2008)... have any of this plans been completed yet? Because I certainly do not want to reinvent the wheel ;-) .....
- If not.... to keep as close as possible to the procedures described in Makris and colleaugues (2003, 2005), I originally planned to inflate the surface of the cerebellum (they quote in their papers that there might be a way to do that with Freesurfer, when the cerebellum is segmented in its grey and white matter as it is meanwhile implemented in the conventional aseg procedure??); then I wanted to create a cerebellar parcellation atlas according to its gyral and sulcal pattern in a subset of subject and finally hoped to be able to process the rest of my population largely automatically with the help of this new atlas... does this seem reasonable? And do anyone have experience with tasks like that?
- But then, I learned again from the mailing list archive that surface extraction of the cerebellum is that hampered (due to the comprehensible resolution issues), that it is completely disadvised. Instead it was recommended (if any) to include respective volume labels in the aseg procedure and to do a volumetric analysis. Is this right? And are there any instructions how I could do that?
4.As I do not have any experience in tasks like that and sometimes tend to overrate myself (;-)) do you think that it might in principal be feasible to do a automatic cerebellar volume analysis or would I generally be better of in trying to do it manually?
Thank you (again :-)) very much for your advise!!
Kind regards
Cindy ___________________________________________________________ WEB.DE DSL: Internet, Telefon und Entertainment für nur 19,99 EUR/mtl.! http://produkte.web.de/go/02/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Cindy Eckart