Dear all, Ater recon-all,which image can I select to group t-test? And do they need process in advance? Thanks very much. All the best.
2013-11-19
Rujing Zha
Hi Rujing, If you are looking for the cortical thickness measures of a subject, you can find it in that subject's freesurfer directory in the 'stats' folder. In there, you will find a file called ?h.aparc.stats - one for each hemisphere. Within the stats file, you'll see the Average thickness for various cortical regions as well as Mean Thickness of the entire cortex towards the top. The stats for the cortical regions determined by the Destrieux atlas are in the same directory.
I suggest looking at the ROI Analysis slides on this page: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial
And the tutorial about how to get the stats into a spreadsheet for analysis here: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI
Please be sure to check over your data before analysis to make sure there are no errors that will affect your study. Allison
On Tue, 19 Nov 2013, Rujing Zha wrote:
Dear all, Ater recon-all,which image can I select to group t-test? And do they need process in advance? Thanks very much. All the best. 2013-11-19
Rujing Zha
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Look at our tutorial on group analysis on the wiki. Briefly, you need to run mris_preproc (transforms all subjects' thickness maps to surface atlas space), mri_surf2surf to smooth the thickness maps, then create an FSGD file and run mri_glmfit to perform the t tests doug
On 11/19/2013 08:07 AM, Rujing Zha wrote:
Dear all, Ater recon-all,which image can I select to group t-test? And do they need process in advance? Thanks very much. All the best. 2013-11-19
/Rujing Zha/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Dear doug, Thanks for your precious prompt, I will try. All the best. 2013-11-20
Rujing Zha
发件人：Douglas N Greve greve@nmr.mgh.harvard.edu 发送时间：2013-11-20 00:20 主题：Re: [Freesurfer] how to obtain subjects cortical thickness and then analyze unpair t-test 收件人："freesurfer"freesurfer@nmr.mgh.harvard.edu 抄送：
Look at our tutorial on group analysis on the wiki. Briefly, you need to run mris_preproc (transforms all subjects' thickness maps to surface atlas space), mri_surf2surf to smooth the thickness maps, then create an FSGD file and run mri_glmfit to perform the t tests doug
On 11/19/2013 08:07 AM, Rujing Zha wrote:
Dear all, Ater recon-all,which image can I select to group t-test? And do they need process in advance? Thanks very much. All the best. 2013-11-19
/Rujing Zha/
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Allison Stevens -
Douglas N Greve -
Rujing Zha