You can load surface-based time course data as a surface overlay, I believe. But there is no function to view the scatter plot. The time course window is for volume only.
Ruopeng
On Feb 26, 2014, at 10:13 PM, Douglas Greve greve@nmr.mgh.harvard.edu wrote:
That command definitely will not work. When you ran the command I sent, did it at least show you something on the surface?
Ruopeng, is there a way to load a surface-based timecourse in freeview?
doug
On 2/26/14 9:11 PM, charujing123 wrote:
Hi doug, Thanks doug. I am sorry to describe my question no very clearly.It did work,but I want to view time course of lh.score.thickness.00.mgh vertex by vertex. So I need to try -v option to view time course manually as you just told me. However I cannot view anything but darkness when I try ""freeview -v lh.score.thickness.00.mgh"". Is there any tool or method to present a time course window(or a colume of numbers) when I click one voxel or vertex. And numbers in time course window will change when I click other voxel or vertex. Thanks, All the best. Rujing Zha
2014-02-27 charujing123 发件人：Douglas N Greve greve@nmr.mgh.harvard.edu 发送时间：2014-02-27 01:51 主题：Re: [Freesurfer] time course in mri_info lh.gender_age.thickness.10.mgh 收件人："freesurfer"freesurfer@nmr.mgh.harvard.edu 抄送：
Try this freeview -f $SUBJECTS_DIR/fsaverage/surf/lh.inflated:overlay=$SUBJECTS_DIR/glm/lh.score.thickness.00.mgh Don't use -v in this case because -v is for a volumes and volume overlays and all your data are surface overlays
On 02/25/2014 08:38 PM, charujing123 wrote:
Hi doug and others, It will be highly appreciated,if anyone can help me. Thanks. All the best. Rujing Zhas 2014-02-26
charujing123
*发件人：*"charujing123"charujing123@163.com *发送时间：*2014-02-25 12:01 *主题：*Re: [Freesurfer] time course in mri_info lh.gender_age.thickness.10.mgh *收件 人：*"freesurfer@nmr.mgh.harvard.edu"freesurfer@nmr.mgh.harvard.edu *抄送：* Hi doug, When I try to do this by "freeview -f $SUBJECTS_DIR/fsaverage/surf/lh.inflated:overlay=$SUBJECTS_DIR/glm/lh.score.thickness.00.mgh -v lh.score.thickness.00.mgh" or "freeview -v lh.score.thickness.00.mgh", it did create a window of time course. However there is nothing in the freeview window except darkness((i.e.fig1 in the attachment)). By the way, I can see something by "freeview -f $SUBJECTS_DIR/fsaverage/surf/lh.inflated:overlay=$SUBJECTS_DIR/glm/lh.score.thickness.00.mgh"(i.e.fig2 in the attachment). All of these can be got in the attachment. Thanks. All the best. Rujing Zha 2014-02-25
charujing123
*发件人：*"charujing123"charujing123@163.com *发送时间：*2014-02-25 10:28 *主题：*Re: [Freesurfer] time course in mri_info lh.gender_age.thickness.10.mgh *收件 人：*"freesurfer@nmr.mgh.harvard.edu"freesurfer@nmr.mgh.harvard.edu *抄送：* Thanks doug All the best. Rujing Zha 2014-02-25
charujing123
*发件 人：*Douglas N Greve greve@nmr.mgh.harvard.edu *发送时间：*2014-02-25 00:31 *主题：*Re: [Freesurfer] time course in mri_info lh.gender_age.thickness.10.mgh *收件 人：*"freesurfer"freesurfer@nmr.mgh.harvard.edu *抄送：* On 02/23/2014 08:32 PM, charujing123 wrote:
Hi all, I have two questions. 1,If I want to get the value of specific voxel from the lh.gender_age.thickness.10.mgh, which code can I use to perform it?
You can go to that vertex when you have it loaded into FreeView, otherwise you can load it into matlab (MRIread.m). Make sure to account for the fact that matlab uses 1-based indices whereas FS uses 0-based.
2,How to graph the time course of specfic voxel from the lh.gender_age.thickness.10.mgh by freeview?
Add "-v lh.gender_age.thickness.10.mgh" to your freeview command line
Thanks. All the best. Rujing Zha 2014-02-24
charujing123
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