I would like to overlay lh.thickness, rh.thickness on inflated for single subject, not the glm results, how to do that is well documented from the tutorial/tutorial group study
tried tksurfer subject lh inflated - got the gray surface
next file->load overlay -> $SUBJECTS_DIR/subject/surf choose lh.thickness * calculate identity map
it redraws the surface but there is no colormap of the thickness
can I do what I am trying ?
Happy Holidays
Greg.
There are a couple things that could be wrong. Make sure that calculating an identity registration is the proper thing to be doing here. Doug can probably tell you more about this. Next, is the file actually loading? Make sure that the output to the shell doesn't have any errors, and that there's a new line in the label/value area with the overlay's name on it. Make sure that there are actually values in that line as you move the mouse aroudn over the surface. If there are, do View->Configure->Overlay and see if you can set the threshold so that it encompasses the values, as the default threshold might be incorrect.
On Fri, Dec 23, 2005 at 03:42:31PM -0500, Kirk, Gregory wrote:
I would like to overlay lh.thickness, rh.thickness on inflated for single subject, not the glm results, how to do that is well documented from the tutorial/tutorial group study
tried tksurfer subject lh inflated - got the gray surface
next file->load overlay -> $SUBJECTS_DIR/subject/surf choose lh.thickness
- calculate identity map
it redraws the surface but there is no colormap of the thickness
hmmm, that should work. Did you try doing configure->overlay and changing the thresholds? Did you get any error messages? You can also load it via file->load curvature and you'll get it in red/green. You can then change the mid point in the view->configure->curvature window
cheers, Bruce On Fri, 23 Dec 2005, Kirk, Gregory wrote:
I would like to overlay lh.thickness, rh.thickness on inflated for single subject, not the glm results, how to do that is well documented from the tutorial/tutorial group study
tried tksurfer subject lh inflated - got the gray surface
next file->load overlay -> $SUBJECTS_DIR/subject/surf choose lh.thickness
- calculate identity map
it redraws the surface but there is no colormap of the thickness
can I do what I am trying ?
Happy Holidays
Greg.
Another method is to use mri_surf2surf to to convert the curv file into an mgh file (run it with --help to see how to use it). Then just load the mgh file as an overlay (with "compute identity").
hmmm, that should work. Did you try doing configure->overlay and changing the thresholds? Did you get any error messages? You can also load it via file->load curvature and you'll get it in red/green. You can then change the mid point in the view->configure->curvature window
cheers, Bruce On Fri, 23 Dec 2005, Kirk, Gregory wrote:
I would like to overlay lh.thickness, rh.thickness on inflated for single subject, not the glm results, how to do that is well documented from the tutorial/tutorial group study
tried tksurfer subject lh inflated - got the gray surface
next file->load overlay -> $SUBJECTS_DIR/subject/surf choose lh.thickness
- calculate identity map
it redraws the surface but there is no colormap of the thickness
can I do what I am trying ?
Happy Holidays
Greg.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
greve＠nmr.mgh.harvard.edu -
Kevin Teich -
Kirk, Gregory