Hi Kambiz, It would still be very helpful if you could send us the volume and the surface files so that we can investigate.
Thanks, Ruopeng On Oct 16, 2013, at 4:10 PM, Kambiz Tavabi <ktav...@uw.edu> wrote: > Hi Ruopeng, > Sorry for the confusion in my initial post. The screen capture is actually a > grab from one of the viewing windows in FREEVIEW; so I am actually not doing > anything on the command line with tkmedit. In freeview, I am loading the > original T1 volume and then loading the skin, outer skull, or inner skull > surfaces from the watershed algorithm and they are obviously in different > coordinates. As a matter of fact the exact same volume and surface boundary > load up perfectly lined up in tkmedit. I am just wondering why the two > programs do not behave in the same way, and how I can get them to behave > similarly if possible. -Kambiz > > ------------------------------------------------------------ > Kambiz Tavabi PhD > Institute for Learning & Brain Sciences > 1715 Columbia Road N > Portage Bay Building > Box 357988 > University of Washington > Seattle, WA 98195-7988 > Tel: 206-685-6173 > ------------------------------------------------------------ > > > On Wed, Oct 16, 2013 at 12:26 PM, Ruopeng Wang <rpw...@nmr.mgh.harvard.edu> > wrote: > Would it be possible to send us the command line and the files that produces > the screenshot? > > Thanks, > Ruopeng > > On Oct 16, 2013, at 2:28 PM, Kambiz Tavabi <ktav...@uw.edu> wrote: > >> I would like to inspect the results of my surface boundary on the volume as >> per the approach in tkmedit. However in freeview the surface boundary and >> volume are not aligned in a common space. Why is that? How does one go about >> aligning the tkregRAS with the RAS? (those are apparently the two different >> coordinate systems according to the information panel). Thanks in advance. >> >> <freeview.jpg> >> ------------------------------------------------------------ >> Kambiz Tavabi PhD >> Institute for Learning & Brain Sciences >> 1715 Columbia Road N >> Portage Bay Building >> Box 357988 >> University of Washington >> Seattle, WA 98195-7988 >> Tel: 206-685-6173 >> ------------------------------------------------------------ >> _______________________________________________ >> 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. > >
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