Jenifer,

To make the subdivisions stand-out, you would need to modify the FreeSurferColorLUT.txt.  This will work:

251 CC_Posterior 255 0 64 0 
252 CC_Mid_Posterior 	0 0 112 0
253 CC_Central 		255 0 160 0
254 CC_Mid_Anterior 	0 0 208 0
255 CC_Anterior 	255 0 255 0

Here, the red value of each alternate subdivision is turned to full intensity, which makes the division easy to see in tkmedit:

tkmedit <subjid> orig.mgz -segmentation aseg.mgz

It should appear like this:


Nick


On Sun, 2008-01-27 at 19:14 -0600, Juranek, Jenifer wrote: 
Hi,
I'm running FSv4.0.1 on a 64bit linux platform and had a few questions about the new added feature wrt the corpus callosum segmentation added as early as v4.0.0...details were not readily returned in Wiki searches...so please point me in the correct direction?
 
1) The 5 separate regions of the CC...how are the boundaries determined? In equal subdivisions (20%) from the genu through the splenium? 
 
2) Although the LUT.txt contains entries for the CC subdivisions, I have been unsuccessful with attempts to display either the aseg.auto_CCseg.mgz or wmparc.mgz files in tkmedit  such that the boundaries between subdivisions are easy to visualize...do I need to modify the LUT.txt file with different entries in the last 4 columns than those already present to make it more obvious? 
EXAMPLE of current entries in LUT.txt...
251 CC_Posterior 0 0 64 0
252 CC_Mid_Posterior 0 0 112 0
253 CC_Central 0 0 160 0
254 CC_Mid_Anterior 0 0 208 0
255 CC_Anterior 0 0 255 0 
 
3) The aseg.stats file contains data for each subdivision...do the values represent area (mm2)? On the midsagittal slice?
 
Many Thanks for any info you can provide!
 
Jenifer

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