In response to the questions, I do see the segmentation properly in
colors (as a translucent color overlay on the anatomical), and I am sure
I am using the Edit Segmentation tool.
Clicking and dragging with the tool does change the segmentation volume,
it just does not change it to the "Sgmtn label" (in the tools window)
that I want. It doesn't matter what value I choose in the Segmentation
Brush Info, the "Sgmtn label" line says "Right-accumbens-intens" and the
paint is grey or white depending on the background color of the
segmentation label map.
Any further ideas? Thanks.
Kevin Teich wrote:
Sorry, I was thinking you were talking about Scuba.
Do you see the segmentation properly, in colors? If not, there was
probably an error in loading the segmentation; do you see any errors
in the shell window?
If you do see the segmentation volume displayed properly as a
translucent color overlay on the anatomical, are you sure you are
using the Edit Segmentation tool? It's a paintbrush over a volume
divided into quarters.
Does clicking and dragging with the tool actually change the
segmentation volume, that is, can you mouse over the edited voxels and
verify that the values in the "Sgmtn label" line in the tools window
matches the value you selected in the Segmentation Brush Info dialog?
On Thu, May 17, 2007 at 02:56:57PM -0400, Jared Conley wrote:
Yes, I believe so. The layer's color map is set to
FreeSurferColorLUT.txt when loading the segmentation. The Segmentation
Brush source is set at Segmentation (under Configure Segmentation
Brush)--I imagine that's what you are referring to when you say "target
layer."
Kevin Teich wrote:
Are you sure the Target Layer is set to the segmentation volume layer? And
that that layer's color map type is set to LUT?
On Thu, May 17, 2007 at 11:23:49AM -0400, Jared Conley wrote:
I am attempting to edit the segmentation results in TkMedit, according
to the following Wiki directions ( >
TkMeditGuide/TkMeditWorkingWithData/TkMeditSegmentations):
A segmentation can be edited with the Edit Segmentation tool, which can
be activated by pushing the icon_copy.gif button on the Main Toolbar, by
choosing *Tools->Edit Segmentation*, or by pressing the 'g' key.
By clicking with button 2 with this tool, you can 'paint' a label in the
segmentation. The color used can be set in the dialog box brought up by
choosing *Tools->Configure Segmentation Brush....*
However, I am not able to change the color to match the structure I am
wanting to edit (I have tried selecting three different structures at
random and the color of the editing remains grey). Any ideas?
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