Hello,
I am Ali Al-Radaideh from the University of Nottingham. I used freesurfer on one set of my MRI data ( MP-RAGE 1mm isotropic resolution) and finished the recon-all step. I was able to display the thickness map but unfortunately I could not be able to find any file that gives me a quantitative measure of cortical thickness, as my intention is to measure the cortical thickness using freesurfer. Would it be possible to advice me on that, please?
Best regards
Ali Al-Radaideh PhD student Sir Peter Mansfied MR Centre The University of Nottingham,UK
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Hi Ali,
the thickness maps are stored in the file ?h.thickness, which is stored in "curvature" format for annoying historical reasons. You should be able to read the in matlab using read_curv.m and write_curv.m, or just load them in tksurfer for visualization purposes. We also have tools for comparing thickness across groups or correlating with other measures.
cheers, Bruce
On Sun, 27 Jul 2008, Al-Radaideh Ali wrote:
Hello,
I am Ali Al-Radaideh from the University of Nottingham. I used freesurfer
on one set of my MRI data ( MP-RAGE 1mm isotropic resolution) and finished the recon-all step. I was able to display the thickness map but unfortunately I could not be able to find any file that gives me a quantitative measure of cortical thickness, as my intention is to measure the cortical thickness using freesurfer. Would it be possible to advice me on that, please?
Best regards
Ali Al-Radaideh PhD student Sir Peter Mansfied MR Centre The University of Nottingham,UK
This message has been checked for viruses but the contents of an attachment may still contain software viruses, which could damage your computer system: you are advised to perform your own checks. Email communications with the University of Nottingham may be monitored as permitted by UK legislation.
Hi Ali,
Beyond the advice of Bruce, in your University there are some people who has experience in FreeSurfer. In the Brain & Body Centre you can talk to Marije Jansen, I think she can indicate some local expert in FreeSurfer.
Best Regards,
Pedro Paulo Jr
2008/7/27 Bruce Fischl fischl@nmr.mgh.harvard.edu
Hi Ali,
the thickness maps are stored in the file ?h.thickness, which is stored in "curvature" format for annoying historical reasons. You should be able to read the in matlab using read_curv.m and write_curv.m, or just load them in tksurfer for visualization purposes. We also have tools for comparing thickness across groups or correlating with other measures.
cheers, Bruce
On Sun, 27 Jul 2008, Al-Radaideh Ali wrote:
Hello,
I am Ali Al-Radaideh from the University of Nottingham. I used freesurfer
on one set of my MRI data ( MP-RAGE 1mm isotropic resolution) and finished the recon-all step. I was able to display the thickness map but unfortunately I could not be able to find any file that gives me a quantitative measure of cortical thickness, as my intention is to measure the cortical thickness using freesurfer. Would it be possible to advice me on that, please?
Best regards
Ali Al-Radaideh PhD student Sir Peter Mansfied MR Centre The University of Nottingham,UK
This message has been checked for viruses but the contents of an attachment may still contain software viruses, which could damage your computer system: you are advised to perform your own checks. Email communications with the University of Nottingham may be monitored as permitted by UK legislation.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Al-Radaideh Ali -
Bruce Fischl -
Pedro Paulo de Magalhães Oliveira Junior