Hi Zhuangming, please remember to post to the list. Thanks! I don't understand your question. What do you mean by the exterior, anterior, posterior, etc, surfaces?
On 3/5/14 11:56 PM, 沈庄明 wrote:
Hi Doug, Thank you for your prompting response. Do you mean the computation only calculate exterior surface of the cortical region ? The other five surface (i.e. anterior, posterior, left, right, interior) are excluded ? Thanks!
Zhuangming
-----原始邮件----- *发件人:* "Douglas Greve" <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> *发送时间:* 2014年3月6日 星期四 *收件人:* freesurfer@nmr.mgh.harvard.edu <mailto:freesurfer@nmr.mgh.harvard.edu> *抄送:* *主题:* Re: [Freesurfer] Surface area in aparc stats By default, the surface area is computed from the white surface (ie, boundary between WM and GM). It is possible to compute it from the pial surface (ie, boundary between GM and background) doug On 3/5/14 9:14 PM, 沈庄明 wrote:Hi all, I need to know how is the SurfArea in ?h.aparc.stats calculated by FreeSurfer? Since each cortical parcellation has its own thickness in 3D space, does the surface area computation consider both the exterior surface (i.e. the surface separating the gray matter and the background) and the interior surface (i.e. the surface separating the gray matter and the white matter)? Thanks! Zhuangming Shen _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Doug, Sorry for forgetting to post to the list. The figure attached to this email could illustrate my questions. The blue region in the figure is a cortical parcellation (i.e. precentral) obtained by FreeSurfer. As I understand, the cortical parcellation has its own thickness (maybe 2~3mm) in actually, therefore, this cortical parcellation has interior surface (red line in the figure) and exterior surface (green line in the figure). The interior surface separates the white matter and the cortical parcellation, while the exterior surface separates the cortical parcellation and the skull. What I want to know is whether both the exterior surface and the interior surface are computed when FreeSurfer calculates the surface area. Thanks!
Zhuangming Shen
-----原始邮件----- 发件人: "Douglas Greve" greve@nmr.mgh.harvard.edu 发送时间: 2014年3月6日 星期四 收件人: "沈庄明" zhmshen@ion.ac.cn, "free surfer" freesurfer@nmr.mgh.harvard.edu 抄送: 主题: Re: [Freesurfer] Surface area in aparc stats
Hi Zhuangming, please remember to post to the list. Thanks! I don't understand your question. What do you mean by the exterior, anterior, posterior, etc, surfaces?
On 3/5/14 11:56 PM, 沈庄明 wrote:
Hi Doug, Thank you for your prompting response. Do you mean the computation only calculate exterior surface of the cortical region ? The other five surface (i.e. anterior, posterior, left, right, interior) are excluded ? Thanks!
Zhuangming
-----原始邮件----- 发件人: "Douglas Greve" greve@nmr.mgh.harvard.edu 发送时间: 2014年3月6日 星期四 收件人:freesurfer@nmr.mgh.harvard.edu 抄送: 主题: Re: [Freesurfer] Surface area in aparc stats
By default, the surface area is computed from the white surface (ie, boundary between WM and GM). It is possible to compute it from the pial surface (ie, boundary between GM and background) doug
On 3/5/14 9:14 PM, 沈庄明 wrote:
Hi all, I need to know how is the SurfArea in ?h.aparc.stats calculated by FreeSurfer? Since each cortical parcellation has its own thickness in 3D space, does the surface area computation consider both the exterior surface (i.e. the surface separating the gray matter and the background) and the interior surface (i.e. the surface separating the gray matter and the white matter)? Thanks!
Zhuangming Shen
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Zhuangming
by default we use the interior ("?h.white") surface for computing area, but you can specify the pial to mris_anatomical_stats if you want instead.
cheers Bruce
On Fri, 7 Mar 2014, 沈庄明 wrote:
Hi Doug, Sorry for forgetting to post to the list. The figure attached to this email could illustrate my questions. The blue region in the figure is a cortical parcellation (i.e. precentral) obtained by FreeSurfer. As I understand, the cortical parcellation has its own thickness (maybe 2~3mm) in actually, therefore, this cortical parcellation has interior surface (red line in the figure) and exterior surface (green line in the figure). The interior surface separates the white matter and the cortical parcellation, while the exterior surface separates the cortical parcellation and the skull. What I want to know is whether both the exterior surface and the interior surface are computed when FreeSurfer calculates the surface area. Thanks!
Zhuangming Shen
[IMAGE]
-----原始邮件----- 发件人: "Douglas Greve" <greve@nmr.mgh.harvard.edu> 发送时间: 2014年3月6日 星期四 收件人: "沈庄明" <zhmshen@ion.ac.cn>, "free surfer" <freesurfer@nmr.mgh.harvard.edu> 抄送: 主题: Re: [Freesurfer] Surface area in aparc stats Hi Zhuangming, please remember to post to the list. Thanks! I don't understand your question. What do you mean by the exterior, anterior, posterior, etc, surfaces? On 3/5/14 11:56 PM, 沈庄明 wrote: Hi Doug, Thank you for your prompting response. Do you mean the computation only calculate exterior surface of the cortical region ? The other five surface (i.e. anterior, posterior, left, right, interior) are excluded ?Thanks!
Zhuangming
-----原始邮件----- 发件人: "Douglas Greve" <greve@nmr.mgh.harvard.edu> 发送时间: 2014年3月6日 星期四 收件人: freesurfer@nmr.mgh.harvard.edu 抄送: 主题: Re: [Freesurfer] Surface area in aparc stats By default, the surface area is computed from the white surface (ie, boundary between WM and GM). It is possible to compute it from the pial surface (ie, boundary between GM and background) doug On 3/5/14 9:14 PM, 沈庄明 wrote: Hi all, I need to know how is the SurfArea in ?h.aparc.stats calculated by FreeSurfer? Since each cortical parcellation has its own thickness in 3D space, does the surface area computation consider both the exterior surface (i.e. the surface separating the gray matter and the background) and the interior surface (i.e. the surface separating the gray matter and the white matter)?Thanks!
Zhuangming Shen
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
By default, just the interior, though it is possible to get measures from the exterior doug
On 3/7/14 1:09 AM, ??? wrote:
Hi Doug, Sorry for forgetting to post to the list. The figure attached to this email could illustrate my questions. The blue region in the figure is a cortical parcellation (i.e. precentral) obtained by FreeSurfer. As I understand, the cortical parcellation has its own thickness (maybe 2~3mm) in actually, therefore, this cortical parcellation has interior surface (red line in the figure) and exterior surface (green line in the figure). The interior surface separates the white matter and the cortical parcellation, while the exterior surface separates the cortical parcellation and the skull. What I want to know is whether both the exterior surface and the interior surface are computed when FreeSurfer calculates the surface area. Thanks!
Zhuangming Shen
-----????----- *???:* "Douglas Greve" <greve@nmr.mgh.harvard.edu> *????:* 2014?3?6? ??? *???:* "???" <zhmshen@ion.ac.cn>, "free surfer" <freesurfer@nmr.mgh.harvard.edu> *??:* *??:* Re: [Freesurfer] Surface area in aparc stats Hi Zhuangming, please remember to post to the list. Thanks! I don't understand your question. What do you mean by the exterior, anterior, posterior, etc, surfaces? On 3/5/14 11:56 PM, ??? wrote:Hi Doug, Thank you for your prompting response. Do you mean the computation only calculate exterior surface of the cortical region ? The other five surface (i.e. anterior, posterior, left, right, interior) are excluded ? Thanks! Zhuangming -----????----- *???:* "Douglas Greve" <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> *????:* 2014?3?6? ??? *???:* freesurfer@nmr.mgh.harvard.edu <mailto:freesurfer@nmr.mgh.harvard.edu> *??:* *??:* Re: [Freesurfer] Surface area in aparc stats By default, the surface area is computed from the white surface (ie, boundary between WM and GM). It is possible to compute it from the pial surface (ie, boundary between GM and background) doug On 3/5/14 9:14 PM, ??? wrote:Hi all, I need to know how is the SurfArea in ?h.aparc.stats calculated by FreeSurfer? Since each cortical parcellation has its own thickness in 3D space, does the surface area computation consider both the exterior surface (i.e. the surface separating the gray matter and the background) and the interior surface (i.e. the surface separating the gray matter and the white matter)? Thanks! Zhuangming Shen _______________________________________________ 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
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas Greve -
沈庄明