Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-13 Thread charujing123
Hi doug Thanks doug. My mask and input mgh file are all fsaverage space. I try the mri_segstats, and I cannot get what you mean clearly. So I read the help of mri_segstats, but neither do I get the information. Then I have to try to run this: mri_segstats --i ./rh.36sb.10.mgh --mask

Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-13 Thread Douglas N Greve
There are a lot of things that I don't understand about your command line. Why are you passing the thickness as the segmentation? The mask only limits the computations to be inside the mask. What precisely are you trying to do? On 05/13/2014 11:27 AM, charujing123 wrote: Hi doug Thanks

Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-13 Thread charujing123
Hi doug, I read your last e-mail again. After changed my command, it worked. Thanks doug. Rujing Zha 2014-05-14 charujing123 发件人：Douglas N Greve gr...@nmr.mgh.harvard.edu 发送时间：2014-05-14 03:14 主题：Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a

Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-12 Thread Douglas N Greve
For #2 you can get the average with mri_segstats passing the mask with the --seg command and using --id 1. If the mask is in fsaverage space, then just apply it to the y.mgh (i,e the input to mri_glmfit passed with --y). Use the --avgwf option to mri_segstats. This will give you the average

Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-05 Thread Douglas N Greve
On 04/30/2014 11:38 PM, charujing123 wrote: Hi FS experts and users I have done the each subjects' surface regestration on fsaverage surface, and merge all of them into a *.mgh. Group analysis is also completed. Now I have two questions: 1,I want to extract the VtxMax vertex number

[Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-04 Thread charujing123
Hi FS experts and users I have done the each subjects' surface regestration on fsaverage surface, and merge all of them into a *.mgh. Group analysis is also completed. Now I have two questions: 1,I want to extract the VtxMax vertex number thickness for all subjects. The VtxMax vertex number can

Re: [Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-05-01 Thread charujing123
Hi all, Looking forward someone can help me. Thanks. All the best. Rujing Zha 2014-05-02 charujing123 发件人：charujing123charujing...@163.com 发送时间：2014-05-01 11:38 主题：[Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

[Freesurfer] problems about extracting specific vertex thickness value and getting a average thickness for a specific mask

2014-04-30 Thread charujing123
Hi FS experts and users I have done the each subjects' surface regestration on fsaverage surface, and merge all of them into a *.mgh. Group analysis is also completed. Now I have two questions: 1,I want to extract the VtxMax vertex number thickness for all subjects. The VtxMax vertex number can