Hi, 

In Figure 5.10 of the Bioimagesuite Users Manual (page 43/PDF page 51), the OrthoViewer GUI is depicted to display Tal Rad and Tal Neu buttons and the Talairach values and MNI values. When I load MRI and brainmask gz files into OrthoViewer, my GUI does not display any of this. I searched different configurations and settings and could not get these values to display. Are there any other configurations or settings changes I should try?

Thanks for your insights!

Victor

Now with NIFTI this is obsolete. The Tal and MNI coordinates only work when the brain is in MNI space (we just detect that it has the right dimensions, i.e. 181x217x181 or 90x109x90). By default "on load" BioImage Suite reorients axial images to radiological orientation (x R->L, y: A->P, z:I->S) so those buttons are no longer needed.

I see.

I used tkregister2 to fix the talairach.xfm output and loaded the fixed registration in Freeview. In the screenshot I have attached, my cursor is near the anterior commissure. Freeview shows that the RAS coordinate at this point is ~0,0,0, as expected. Is this RAS a Talairach RAS or something else? Are the coordinates corresponding to millimeters?

It does look like there is a constant offset from the displayed RAS and the displayed Tkr RAS. 

Thanks!

Victor