[caret-users] how to select a Region of interest on flat surface

[Donna Dierker]

Hi Sofia,

I confess this *Assign voxels within closed border feature is news to me.

If you save both the border and border color files, and then open these 
files later with the flat surface loaded in the main window, then you 
should see the borders.  But if any other surface is loaded in the main 
window, you won't see them.  (Make sure D/C: Border menu has Show 
Borders toggled on; the default behavior depends on the caret version.)

In order to see the borders on other surface configurations (fiducial, 
inflated, etc.), you need to either select auto-project when you draw 
the border (unavailable on older versions), or do Layers: Borders: 
Project borders.  Then, save the resulting borderproj file.

Border and borderproj files differ like so:

* Borderproj attaches the border points to tiles, when facilitates 
viewing across configurations.
* Border files are points in space/grid relative to some reference 
surface.  This can be handy if you need to display multiple borders 
generated from different meshes (subjects or distinct timepoints).

Also, my guess is that when you use this feature, your output is a 
volume paint file (voxels), and that you probably need to save File: 
Volume Paint file in order to save the voxel assignments.

Donna
*
On 04/24/2008 06:10 AM, Sofia Crespi wrote:
> hello..
> i wanto to select a Region of Interest (RoI) on the falt surface 
> previously genereated.
> I usually use the option:
>  
> Layers- Border-Draw border
> I assign the name (plus the numeber of talairach coordinates)
> - type: *closed boundary -2D*
> *-*I select the option *Assign voxels within closed border*
> -thickness: +/-1.
>  
> I design my RoI
>  
> finally I save my file as:
> *1. border file-Surface*
> *2. Border color file *
> ** 
> *sometimes when I load my spec file later + the borders file I can see 
> the selected borders without problems*
> *other times I see the saved files ma I cannot display my borders even 
> if I've correctly selected tha border file...*
> *can you explain me why?*
> *where is my error???*
> ** 
> thanks in advance
> Sofia
>  
>  
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