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thanks.
________________________________
From: "freesurfer-requ...@nmr.mgh.harvard.edu"
<freesurfer-requ...@nmr.mgh.harvard.edu>
To: freesurfer@nmr.mgh.harvard.edu
Sent: Mon, July 12, 2010 8:09:19 AM
Subject: Freesurfer Digest, Vol 77, Issue 22
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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 <gr...@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Displaying significant difference with a
threshold of cluster size
To: liang wang <wangl...@gmail.com>
Cc: freesurfer@nmr.mgh.harvard.edu
Message-ID: <4c3a028f.7070...@nmr.mgh.harvard.edu>
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: wangl...@gmail.com <mailto:wangl...@gmail.com>
> ------------------------------------------------------------------------
>
> _______________________________________________
> 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
gr...@nmr.mgh.harvard.edu
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 <wangl...@gmail.com>
Subject: Re: [Freesurfer] Displaying significant difference with a
threshold of cluster size
To: freesurfer@nmr.mgh.harvard.edu
Message-ID:
<aanlktinu0knzdfiivsrtnnf4luv_slk5ih7eftrio...@mail.gmail.com>
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 <gr...@nmr.mgh.harvard.edu>
> 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: wangl...@gmail.com <mailto:wangl...@gmail.com>
>> ------------------------------------------------------------------------
>>
>> _______________________________________________
>> 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
> gr...@nmr.mgh.harvard.edu
> 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: wangl...@gmail.com
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Message: 3
Date: Mon, 12 Jul 2010 13:09:16 +0800
From: xuemei lei <bnuxue...@gmail.com>
Subject: [Freesurfer] Troubleshooting: Are these pial and wm surface
acceptable?
To: freesurfer@nmr.mgh.harvard.edu
Message-ID:
<aanlktimaqmukywq4axmy3obvmthd1jrm5988xitkt...@mail.gmail.com>
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: bnuxue...@gmail.com
Blog: www.dubo.in
Web: http://psychbrain.bnu.edu.cn
==============================================
Welcome to the Blog: www.dubo.in
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