Re: [Freesurfer] Thickness standard deviation map
The easiest thing is #2. It will produce rstd.mgh as an output, and that's what you want. Burmicz, Ryszarda wrote: Hi Freesurfers, I have tried looking this up on the list, but I don't understand exactly what to do in this scenario: I have a group of subjects (all controls). I want to create a surface map of the standard deviations of the thickness values (i.e. to show how the thicknesses vary across subjects). I am not sure what is the easiest way to go about this - can I: 1) simply convert the ?h.thickness files to .asc and calculate the deviations at each vertex (I am under the impression that this is not correct as they need to be registered to a common surface first), then convert back to .thickness and load into tksurfer 2) use mris_preproc then mris_glmfit? I don't necessarily want to calculate any stats, but I wouldn't mind a pretty picture :) If I have 4 groups of 10 subjects each, so if I churn these all through glm_fit will I be able to access separate thickness files for each group? And how can I map standard deviations for each group in this scenario? Many thanks, Rysia ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center [EMAIL PROTECTED] Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] thickness standard deviation
not really, since they contain both gyral and sulcal regions. Better than the whole surface I guess, but spatial standard deviations don't mean a whole lot - it's the cross subject ones you care about Bruce On Thu, 24 Aug 2006, Sasha Wolosin wrote: I understand that thickness may vary greatly across the entire surface, but shouldn't we expect some stability within smaller regions (e.g. those in the Desikan/Killany atlas)? Bruce Fischl <[EMAIL PROTECTED]> 8/24/2006 4:40 pm >>> Hi Sasha, the standard deviation across the surface isn't a very meaningful number, since the thickness isn't spatially stationary. cheers, Bruce On Thu, 24 Aug 2006, Sasha Wolosin wrote: Dear all, I am interested in measuring mean thickness within ROI in MPRAGEs of children. My mean thickness values tend to be around 3.3 mm, with a standard deviation of about 1mm. I am concerned that these standard deviations are somewhat high. What typical values should I be expecting for standard deviation? Thanks, Sasha Disclaimer: The materials in this e-mail are private and may contain Protected Health Information. Please note that e-mail is not necessarily confidential or secure. Your use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] thickness standard deviation
Hi Sasha, the standard deviation across the surface isn't a very meaningful number, since the thickness isn't spatially stationary. cheers, Bruce On Thu, 24 Aug 2006, Sasha Wolosin wrote: Dear all, I am interested in measuring mean thickness within ROI in MPRAGEs of children. My mean thickness values tend to be around 3.3 mm, with a standard deviation of about 1mm. I am concerned that these standard deviations are somewhat high. What typical values should I be expecting for standard deviation? Thanks, Sasha Disclaimer: The materials in this e-mail are private and may contain Protected Health Information. Please note that e-mail is not necessarily confidential or secure. Your use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] thickness standard deviation
I understand that thickness may vary greatly across the entire surface, but shouldn't we expect some stability within smaller regions (e.g. those in the Desikan/Killany atlas)? >>> Bruce Fischl <[EMAIL PROTECTED]> 8/24/2006 4:40 pm >>> Hi Sasha, the standard deviation across the surface isn't a very meaningful number, since the thickness isn't spatially stationary. cheers, Bruce On Thu, 24 Aug 2006, Sasha Wolosin wrote: > Dear all, > I am interested in measuring mean thickness within ROI in MPRAGEs of > children. My mean thickness values tend to be around 3.3 mm, with a > standard deviation of about 1mm. I am concerned that these standard > deviations are somewhat high. What typical values should I be expecting > for standard deviation? > Thanks, > Sasha > > > > Disclaimer: > The materials in this e-mail are private and may contain Protected Health Information. Please note that e-mail is not necessarily confidential or secure. Your use of e-mail constitutes your acknowledgment of these confidentiality and security limitations. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying, distribution, or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this e-mail in error, please immediately notify the sender via telephone or return e-mail. > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
