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 <gr...@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 <gr...@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"<charujing...@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"<charujing...@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 <gr...@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 >> > > >> > > >> > > _______________________________________________ >> > > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 >> > www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > The information in this e-mail is intended only for the person to whom >> > it is >> > addressed. If you believe this e-mail was sent to you in error and the >> > e-mail >> > contains patient information, please contact the Partners Compliance >> > HelpLine at >> > http://www.partners.org/complianceline . If the e-mail was sent to you >> > in error >> > but does not contain patient information, please contact the sender >> > and properly >> > dispose of the e-mail. >> > >> > >> > _______________________________________________ >> > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> 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 >
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