unsubscribe me thanks.
________________________________ From: "[email protected]" <[email protected]> To: [email protected] Sent: Mon, July 12, 2010 8:09:19 AM Subject: Freesurfer Digest, Vol 77, Issue 22 Send Freesurfer mailing list submissions to [email protected] To subscribe or unsubscribe via the World Wide Web, visit https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer or, via email, send a message with subject or body 'help' to [email protected] You can reach the person managing the list at [email protected] When replying, please edit your Subject line so it is more specific than "Re: Contents of Freesurfer digest..." Today's Topics: 1. Re: Displaying significant difference with a threshold of cluster size (Douglas N Greve) 2. Re: Displaying significant difference with a threshold of cluster size (liang wang) 3. Troubleshooting: Are these pial and wm surface acceptable? (xuemei lei) ---------------------------------------------------------------------- Message: 1 Date: Sun, 11 Jul 2010 13:42:39 -0400 From: Douglas N Greve <[email protected]> Subject: Re: [Freesurfer] Displaying significant difference with a threshold of cluster size To: liang wang <[email protected]> Cc: [email protected] Message-ID: <[email protected]> Content-Type: text/plain; charset=ISO-8859-1; format=flowed You should correct for multiple comparisons using cluster-wise correction. See the tutorials on group analysis on our wiki. doug liang wang wrote: > Hi, > > Using mri_glmfit, I found significant between-group difference in > cortical thickness in some regions. However, there are a lot regions > with very small vertices surviving the given threshold. What I need to > do is displaying large clusters (e.g. having 20 vertices at least) > assumed as "true" difference. I don't know how to make it by a > selected threshold of cluster size . Any suggestions would be appreciated. > > Liang > > -- > Liang Wang, PhD > Postdoctoral Fellow > Woodward Lab > Department of Psychiatry > University of British Columbia > BC Mental Health & Addiction Services > 938 West 28th Avenue > Vancouver BC V5Z 4H4 > Telephone: 1-604-875-2000 (ext. 4735) > Fax: 1-604-875-3871 > Email: [email protected] <mailto:[email protected]> > ------------------------------------------------------------------------ > > _______________________________________________ > Freesurfer mailing list > [email protected] > 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 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html ------------------------------ Message: 2 Date: Sun, 11 Jul 2010 11:16:17 -0700 From: liang wang <[email protected]> Subject: Re: [Freesurfer] Displaying significant difference with a threshold of cluster size To: [email protected] Message-ID: <[email protected]> Content-Type: text/plain; charset="iso-8859-1" Hello Doug, Thanks for your kind response. I have tried to use mri_glmfit-sim to correct the results. However, no significant differences were observed. To compare with other studies, I would like to report the results (p < 0.001, uncorrected) and mention that they will disappear if corrected by cluster-based threshold method. Is it a acceptable way? Liang 2010/7/11 Douglas N Greve <[email protected]> > You should correct for multiple comparisons using cluster-wise correction. > See the tutorials on group analysis on our wiki. > > doug > > liang wang wrote: > >> Hi, >> >> Using mri_glmfit, I found significant between-group difference in cortical >> thickness in some regions. However, there are a lot regions with very small >> vertices surviving the given threshold. What I need to do is displaying >> large clusters (e.g. having 20 vertices at least) assumed as "true" >> difference. I don't know how to make it by a selected threshold of cluster >> size . Any suggestions would be appreciated. >> >> Liang >> >> -- >> Liang Wang, PhD >> Postdoctoral Fellow >> Woodward Lab >> Department of Psychiatry >> University of British Columbia >> BC Mental Health & Addiction Services >> 938 West 28th Avenue >> Vancouver BC V5Z 4H4 >> Telephone: 1-604-875-2000 (ext. 4735) >> Fax: 1-604-875-3871 >> Email: [email protected] <mailto:[email protected]> >> ------------------------------------------------------------------------ >> >> _______________________________________________ >> Freesurfer mailing list >> [email protected] >> 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 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > -- Liang Wang, PhD Postdoctoral Fellow Woodward Lab Department of Psychiatry University of British Columbia BC Mental Health & Addiction Services 938 West 28th Avenue Vancouver BC V5Z 4H4 Telephone: 1-604-875-2000 (ext. 4735) Fax: 1-604-875-3871 Email: [email protected] -------------- next part -------------- An HTML attachment was scrubbed... URL: http://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/attachments/20100711/abba1269/attachment-0001.html ------------------------------ Message: 3 Date: Mon, 12 Jul 2010 13:09:16 +0800 From: xuemei lei <[email protected]> Subject: [Freesurfer] Troubleshooting: Are these pial and wm surface acceptable? To: [email protected] Message-ID: <[email protected]> Content-Type: text/plain; charset="iso-8859-1" Hi All I recently started with FreeSurfer, and I am not sure about the pial and wm surface in the subcortical regions( eg. Hippocampus and amygdala,Medial temporal lobe). I have attatched the figures. Are these pial and wm surfaces acceptable? I have no ideas about the criterion and the right surface in this regions reconstracted by Freesurfer. Please let me know! thank you very much! -- Xuemei Lei National Key Laboratory of Cognitive Neuroscience and Learning Beijing Normal University Beijing, China. 100875 Tel: +86-13269171259 Email: [email protected] Blog: www.dubo.in Web: http://psychbrain.bnu.edu.cn ============================================== Welcome to the Blog: www.dubo.in -------------- next part -------------- An HTML attachment was scrubbed... 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