Yes, you just need to have it in the right format. I've attached an example.
On 08/24/2018 04:48 PM, miracle ozzoude wrote:
External Email - Use Caution
Hello,
Can i specify a lookup table when using mri_gtmpvc? This is because I
have a non-freesurfer segmentation (MALPEM) and i would like to
perform partial volume on it without having to run freesurfer on the
subject for PET analysis. I have a lookup table for the segmentation.
I know mri_gtmpvc expects (?.ctab) file from the segmentation however,
it will require processing the subject with freesurfer and petsurfer.
I only want to use the partial volume command. How do I make it use
the lookup table i made rather than ?.ctab file?
Thank you.
Best,
Paul
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# TissueTypeSchema
#ctTType 0 unknown 0 0 00
#ctTType 1 cortex 205 62 780
#ctTType 2 subcort_gm 230 148 340
#ctTType 3 wm0 255 00
#ctTType 4 csf 120 18 1340
#ctTType 5 head150 150 2000
0 Unknown 0 0 00 0
2 Left-Cerebral-White-Matter 245 245 2450 3
4 Left-Lateral-Ventricle 120 18 1340 4
5 Left-Inf-Lat-Vent 196 58 2500 4
7 Left-Cerebellum-White-Matter220 248 1640 3
8 Left-Cerebellum-Cortex 230 148 340 2
10 Left-Thalamus-Proper 0 118 140 2
11 Left-Caudate122 186 2200 2
12 Left-Putamen236 13 1760 2
13 Left-Pallidum12 48 2550 2
14 3rd-Ventricle 204 182 1420 4
15 4th-Ventricle42 204 1640 4
16 Brain-Stem 119 159 1760 3
17 Left-Hippocampus220 216 200 2
18 Left-Amygdala 103 255 2550 2
24 CSF 60 60 600 4
26 Left-Accumbens-area 255 165 00 2
28 Left-VentralDC 165 42 420 3
30 Left-vessel 160 32 2400 4
31 Left-choroid-plexus 0 200 2000 4
41 Right-Cerebral-White-Matter 245 245 2450 3
43 Right-Lateral-Ventricle 120 18 1340 4
44 Right-Inf-Lat-Vent 196 58 2500 4
46 Right-Cerebellum-White-Matter 220 248 1640 3
47 Right-Cerebellum-Cortex 230 148 340 2
49 Right-Thalamus-Proper 0 118 140 2
50 Right-Caudate 122 186 2200 2
51 Right-Putamen 236 13 1760 2
52 Right-Pallidum 13 48 2550 2
53 Right-Hippocampus 220 216 200 2
54 Right-Amygdala 103 255 2550 2
58 Right-Accumbens-area255 165 00 2
60 Right-VentralDC 165 42 420 3
62 Right-vessel160 32 2400 4
63 Right-choroid-plexus 0 200 2210 4
72 5th-Ventricle 120 190 1500 4
80 non-WM-hypointensities 164 108 2260 2
85 Optic-Chiasm234 169 300 3
130 Air 147 19 1730 5
165 Skull 120 120 1200 5
172 Vermis 119 100 1760 2
174 Pons119 159 1000 3
257 CSF-ExtraCerebral60 60 600 4
258 Head-ExtraCerebral 150 150 2000 5
1001 ctx-lh-bankssts 25 100 400 1
1002 ctx-lh-caudalanteriorcingulate 125 100 1600 1
1003 ctx-lh-caudalmiddlefrontal 100 25 00 1
1005 ctx-lh-cuneus 220 20 1000 1
1006 ctx-lh-entorhinal 220 20 100 1
1007 ctx-lh-fusiform 180 220 1400 1
1008 ctx-lh-inferiorparietal 220 60 2200 1
1009 ctx-lh-inferiortemporal 180 40 1200 1
1010 ctx-lh-isthmuscingulate 140 20 1400 1
1011 ctx-lh-lateraloccipital 20 30 1400 1
1012 ctx-lh-lateralorbitofrontal 35 75 500 1
1013 ctx-lh-lingual 225 140 1400 1
1014 ctx-lh-medialorbitofrontal 200 35 750 1
1015 ctx-lh-middletemporal 160 100 500 1
1016 ctx-lh-parahippocampal 20 220 600 1
1017 ctx-lh-paracentral 60 220 600 1
1018 ctx-lh-parsopercularis 220 180 1400 1
1019 ctx-lh-parsorbitalis 20 100 500 1
1020 ctx-lh-parstriangularis 220 60 200 1
1021
