Hi:
I will write my question in another way: in which file could I find the palette that tksurfer and tkmedit uses to display overlay data ?... because I want to create other palettes...
Sincerely,
Gonzalo Rojas Costa
Hi Gonzalo,
what kind of overlay data? The color lookup table is in $FREESURFER_HOME/FreeSurferColorLUT.txt for displaying segmentations. The heat scale and such for other overlays are not configurable unfortunately I don't think
cheers Bruce
On Tue, 12 Jan 2010, Gonzalo Rojas Costa wrote:
Hi:
I will write my question in another way: in which file could I find the palette that tksurfer and tkmedit uses to display overlay data ?... because I want to create other palettes...
Sincerely,
Gonzalo Rojas Costa
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Bruce:
Yes... I asking about the color palette for other overlays... the heat scale... Because, I am trying to display as an overlay an image that have five discrete valuesa, and for that, I need another type of color palette...
Sincerely,
Gonzalo Rojas Costa Department of Radiology Las Condes Clinic Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
El 12-01-2010 13:07, Bruce Fischl escribió:
Hi Gonzalo,
what kind of overlay data? The color lookup table is in $FREESURFER_HOME/FreeSurferColorLUT.txt for displaying segmentations. The heat scale and such for other overlays are not configurable unfortunately I don't think
cheers Bruce
What you really have is a segmentation (if you set your discrete values to ints). For tkmedit, you can just create a LUT (like FreeSurferColorLUT.txt) and load as a -segmentation. For tksurfer, you can create an LUT as above, then run mris_seg2annot to create an annotation.
doug
Gonzalo Rojas wrote:
Hi Bruce:
Yes... I asking about the color palette for other overlays... the heat scale... Because, I am trying to display as an overlay an image that have five discrete valuesa, and for that, I need another type of color palette...
Sincerely,
Gonzalo Rojas Costa Department of Radiology Las Condes Clinic Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
El 12-01-2010 13:07, Bruce Fischl escribió:
Hi Gonzalo,
what kind of overlay data? The color lookup table is in $FREESURFER_HOME/FreeSurferColorLUT.txt for displaying segmentations. The heat scale and such for other overlays are not configurable unfortunately I don't think
cheers Bruce
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Doug:
Yes... I think that I could change the palette with your methods for tkmedit and tksurfer respectively... But, the image that I want to load as an overlay has 116x116x50 and I corregistered to tksurfer main volume, and I could load in tkmedit as an overlay specifing the register.dat file that I got with bbregister... but if I try to load as a segmentation file in tkmedit, I couldn't specify the register.dat file... How can I solve that problem ?...
Sincerely,
Gonzalo Rojas Costa Department of Radiology Las Condes Clinic Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
El 12-01-2010 14:16, Douglas N Greve escribió:
What you really have is a segmentation (if you set your discrete values to ints). For tkmedit, you can just create a LUT (like FreeSurferColorLUT.txt) and load as a -segmentation. For tksurfer, you can create an LUT as above, then run mris_seg2annot to create an annotation.
doug
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Douglas N Greve -
Gonzalo Rojas -
Gonzalo Rojas Costa