Difference between revisions of "CCA:AtlasTools:LabelPage:Sample"

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| 7
 
| 7
 
| white matter of cerebellum left
 
| white matter of cerebellum left
−
| rgb(220,248,164)
+
| rgb(221,248,164)
 
|  
 
|  
 
|-
 
|-
Line 654: Line 654:
 
|  
 
|  
 
|-
 
|-
 +
|}
 +
 +
=== Thalamic Nuclei Expansion ===
 +
{| class="wikitable sortable labelpage labelpagetable" border="1"
 +
! integer_label
 +
! text_label
 +
! color
 +
! notes
 +
|-
 +
| 500
 +
| internal medullar lamina R
 +
| rgb(200,200,200)
 +
|  style="background:#C8C8C8"|
 +
|-
 +
| 501
 +
| internal medullar lamina L
 +
| rgb(200,200,200)
 +
| style="background:#C8C8C8"|
 +
|-
 +
| 502
 +
| medial geniculate body R
 +
| rgb(125,250,21)
 +
| style="background:#7DFA15"|
 +
|-
 +
| 503
 +
| medial geniculate body L
 +
| rgb(125,250, 21)
 +
| style="background:#7DFA15"|
 +
|-
 +
| 504
 +
| lateral geniculate body R
 +
| rgb(102,178,255)
 +
| style="background:#66B2FF"|
 +
|-
 +
| 505
 +
| lateral geniculate body L
 +
| rgb(102,178,255)
 +
| style="background:#66B2FF"|
 +
|-
 +
| 506
 +
| pulvinar R
 +
| rgb(63,104,224)
 +
| style="background:#3F68E0"|
 +
|-
 +
| 507
 +
| pulvinar L
 +
| rgb(63,104,224)
 +
| style="background:#3F68E0"|
 +
|-
 +
| 508
 +
| anterior thalamic nucleus R
 +
| rgb(255,25,127)
 +
| style="background:#FF197F"|in the old SPL-BrainAtlas-Colorfile.txt ''L'' and ''R'' are mislabeled (switched)
 +
|-
 +
| 509
 +
| anterior thalamic nucleus L
 +
| rgb(255,25,127)
 +
| style="background:#FF197F"|in the old SPL-BrainAtlas-Colorfile.txt ''L'' and ''R'' are mislabeled (switched)
 +
|-
 +
| 510
 +
| dorsomedial thalamic nucleus R
 +
| rgb(60,189,130)
 +
| style="background:#3CBD82"|
 +
|-
 +
| 511
 +
| dorsomedial thalamic nucleus L
 +
| rgb(60,189,130)
 +
| style="background:#3CBD82"|
 +
|-
 +
| 512
 +
| centromedian thalamic nucleus R
 +
| rgb(188,181,105)
 +
| style="background:#BCB569"|
 +
|-
 +
| 513
 +
| centromedian thalamic nucleus L
 +
| rgb(188,181,105)
 +
| style="background:#BCB569"|
 +
|-
 +
| 514
 +
| ventral anterior thalamic nucleus R
 +
| rgb(254,213,0)
 +
| style="background:#FED500"|
 +
|-
 +
| 515
 +
| ventral anterior thalamic nucleus R
 +
| rgb(254,213,0)
 +
| style="background:#FED500"|
 +
|-
 +
| 516
 +
| ventral lateral thalamic nucleus R
 +
| rgb(60,180,180)
 +
| style="background:#3CB4B4"|
 +
|-
 +
| 517
 +
| ventral lateral thalamic nucleus L
 +
| rgb(60,180,180)
 +
| style="background:#3CB4B4"|
 +
|-
 +
| 518
 +
| lateral posterior thalamic nucleus R
 +
| rgb(204,127,0)
 +
| style="background:#CC7F00"|
 +
|-
 +
| 519
 +
| lateral posterior thalamic nucleus L
 +
| rgb(204,127,0)
 +
| style="background:#CC7F00"|
 +
|-
 +
| 520
 +
| lateral dorsal thalamic nucleus R
 +
| rgb(175,194,221)
 +
| style="background:#AFC2DD"|
 +
|-
 +
| 521
 +
| lateral dorsal thalamic nucleus L
 +
| rgb(175,194,221)
 +
| style="background:#AFC2DD"|
 +
|-
 +
| 522
 +
| VPM thalamic nucleus R
 +
| rgb(225,167,104)
 +
| style="background:#FFA768"|
 +
|-
 +
| 523
 +
| VPM thalamic nucleus L
 +
| rgb(225,167,104)
 +
| style="background:#FFA768"|
 +
|-
 +
| 524
 +
| VPL thalamic nucleus R
 +
| rgb(229,127,127)
 +
| style="background:#E57F7F"|
 +
|-
 +
| 525
 +
| VPL thalamic nucleus L
 +
| rgb(229,127,127)
 +
| style="background:#E57F7F"|
 
|}
 
|}
  
Line 668: Line 806:
 
| rgb(0,0,0)
 
| rgb(0,0,0)
 
| The background value is stored here because it isn't anatomical.
 
| The background value is stored here because it isn't anatomical.
−
|-
 
−
| 10000
 
−
| bounding box
 
−
| rgb(255, 128, 128)
 
−
| This is just a made-up label.
 
−
|-
 
−
| 10001
 
−
| selection
 
−
| rgb(255, 255, 255)
 
−
| Also made up.
 
 
|}
 
|}
  
Line 686: Line 814:
  
 
TODO: Generate this file automatically as part of wiki editing.
 
TODO: Generate this file automatically as part of wiki editing.
−
<pre>
 
−
#WARNING: This file is automatically generated.
 
−
#WARNING: Any edits made to this file may be overwritten.
 
−
#
 
−
#Filename: CCA_AtlasTools_LabelPage_Sample.txt
 
−
#Title: CCA:AtlasTools:LabelPage:Sample
 
−
#PageName: CCA:AtlasTools:LabelPage:Sample
 
−
#Source: http://www.na-mic.org/Wiki/index.php/CCA:AtlasTools:LabelPage:Sample
 
−
#
 
−
#Imported page URLs:
 
−
# 0: http://www.na-mic.org/Wiki/index.php/CCA:AtlasTools:LabelPage:SampleExternal
 
−
# 1: http://www.na-mic.org/Wiki/index.php/CCA:AtlasTools:LabelPage:SampleExternal2
 
−
#
 
−
#Begin table data:
 
−
0 background 0 0 0 255
 
−
2 white_matter_of_left_cerebral_hemisphere 245 245 245 255
 
−
4 left_lateral_ventricle 120 18 134 255
 
−
5 temporal_horn_of_left_lateral_ventricle 196 58 250 255
 
−
7 white_matter_of_cerebellum_left 220 248 164 255
 
−
8 left_cerebellar_cortex 230 148 34 255
 
−
10 left_thalamus 0 118 14 255
 
−
11 left_caudate_nucleus 122 186 220 255
 
−
12 left_putamen 236 13 176 255
 
−
13 left_globus_pallidus_pars_externa 12 48 255 255
 
−
14 wall_of_third_ventricle 204 182 142 255
 
−
15 fourth_ventricle 42 204 164 255
 
−
17 left_hippocampus 220 216 20 255
 
−
18 left_amygdala 103 255 255 255
 
−
24 third_ventricle_(1) 60 60 60 255
 
−
25 left_globus_pallidus_pars_interna 255 165 0 255
 
−
26 left_nucleus_accumbens 165 0 255 255
 
−
27 left_middle_cerebellar_peduncle 0 255 127 255
 
−
28 left_hypothalamus 165 42 42 255
 
−
34 left_superior_cerebellar_peduncle 122 135 50 255
 
−
35 pons 51 50 135 255
 
−
40 midbrain 205 62 78 255
 
−
41 white_matter_of_right_cerebral_hemisphere 0 225 0 255
 
−
43 right_lateral_ventricle 120 18 134 255
 
−
44 temporal_horn_of_right_lateral_ventricle 196 58 250 255
 
−
46 white_matter_of_cerebellum_right 220 248 164 255
 
−
47 right_cerebellar_cortex 230 148 34 255
 
−
49 right_thalamus 0 118 14 255
 
−
50 right_caudate_nucleus 122 186 220 255
 
−
51 right_putamen 236 13 176 255
 
−
52 right_globus_pallidus_pars_externa 13 48 255 255
 
−
53 right_hippocampus 220 216 20 255
 
−
54 right_amygdala 103 255 255 255
 
−
55 right_insula 80 196 98 255
 
−
58 right_nucleus_accumbens 255 165 0 255
 
−
60 right_hypothalamus 165 42 42 255
 
−
61 medulla_oblongata 135 206 235 255
 
−
63 choroid_plexus_of_right_lateral_ventricle 0 200 221 255
 
−
66 left_substantia_nigra 122 135 50 255
 
−
71 right_substantia_nigra 122 135 50 255
 
−
72 pineal_body 120 190 150 255
 
−
78 left_optic_tract 255 148 10 255
 
−
79 left_red_nucleus 255 148 10 255
 
−
84 right_red_nucleus 255 218 185 255
 
−
85 optic_chiasm 234 169 30 255
 
−
96 pellucid_septum 205 10 125 255
 
−
100 left_mammillothalamic_tract 124 140 178 255
 
−
142 anterior_commissure 221 226 68 255
 
−
200 right_mammillothalamic_tract 0 50 128 255
 
−
216 right_optic_tract 255 204 102 255
 
−
1000 left_insula 25 5 25 255
 
−
1001 left_superior_temporal_gyrus_(1) 25 100 40 255
 
−
1002 left_cingulate_gyrus_(1) 125 100 160 255
 
−
1003 left_middle_frontal_gyrus_(1) 100 25 0 255
 
−
1005 left_cuneus 220 20 100 255
 
−
1006 left_ambiens_gyrus 220 20 10 255
 
−
1007 left_fusiform_gyrus 180 220 140 255
 
−
1008 left_inferior_parietal_lobule 220 60 220 255
 
−
1009 left_inferior_temporal_gyrus 180 40 120 255
 
−
1010 left_cingulate_gyrus_(2) 140 20 140 255
 
−
1011 left_lateral_occipital_gyrus 20 30 140 255
 
−
1012 left_orbital_gyri 35 75 50 255
 
−
1013 left_lingual_gyrus 225 140 140 255
 
−
1014 left_straight_gyrus 200 35 75 255
 
−
1015 left_middle_temporal_gyrus 160 100 50 255
 
−
1017 left_paracentral_lobule 20 220 60 255
 
−
1018 opercular_part_of_left_inferior_frontal_gyrus 60 220 60 255
 
−
1019 orbital_part_of_left_inferior_frontal_gyrus 220 180 140 255
 
−
1020 triangular_part_of_left_inferior_frontal_gyrus 220 60 20 255
 
−
1021 left_visual_cortex 120 100 60 255
 
−
1022 left_postcentral_gyrus 220 20 20 255
 
−
1023 left_cingulate_gyrus_(1) 220 180 220 255
 
−
1024 left_precentral_gyrus 60 20 220 255
 
−
1025 left_precuneus 160 140 180 255
 
−
1026 left_cingulate_gyrus_(3) 80 20 140 255
 
−
1027 left_middle_frontal_gyrus_(2) 75 50 125 255
 
−
1028 left_superior_frontal_gyrus_(1) 20 220 160 255
 
−
1029 left_superior_parietal_lobule_and_precuneus 20 180 140 255
 
−
1030 left_superior_temporal_gyrus 140 220 220 255
 
−
1031 left_angular_and_supramarginal_gyrus 80 160 20 255
 
−
1032 left_frontal_pole 100 0 100 255
 
−
1033 left_temporal_pole 70 70 70 255
 
−
1034 left_transverse_temporal_gyri 150 150 200 255
 
−
2001 right_superior_temporal_gyrus_(2) 25 100 40 255
 
−
2003 right_middle_frontal_gyrus_(1) 100 25 0 255
 
−
2005 right_cuneus 220 20 100 255
 
−
2006 right_parahippocampal_gyrus 220 20 10 255
 
−
2007 right_fusiform_gyrus 180 220 140 255
 
−
2008 right_angular_and_supramarginal_gyri 220 60 220 255
 
−
2009 right_inferior_temporal_gyrus 180 40 120 255
 
−
2010 right_cingulate_gyrus_(2) 140 20 140 255
 
−
2011 right_lateral_occipital_gyrus 20 30 140 255
 
−
2012 right_orbital_gyri_(1) 35 75 50 255
 
−
2013 right_lingual_gyrus 225 140 140 255
 
−
2014 right_straight_gyrus 200 35 75 255
 
−
2015 right_middle_temporal_gyrus 160 100 50 255
 
−
2017 right_paracentral_lobule 60 220 60 255
 
−
2018 opercular_part_of_right_inferior_frontal_gyrus 220 180 140 255
 
−
2019 orbital_part_of_right_inferior_frontal_gyrus 20 100 50 255
 
−
2020 triangular_part_of_right_inferior_frontal_gyrus 220 60 20 255
 
−
2021 right_visual_cortex 120 100 60 255
 
−
2022 right_postcentral_gyrus 220 20 20 255
 
−
2023 right_cingulate_gyrus_(1) 220 180 220 255
 
−
2024 right_precentral_gyrus 60 20 220 255
 
−
2025 right_precuneus 160 140 180 255
 
−
2027 right_middle_frontal_gyrus_(1) 75 50 125 255
 
−
2028 right_superior_frontal_gyrus 20 220 160 255
 
−
2029 right_superior_parietal_lobule 20 180 140 255
 
−
2030 right_superior_temporal_gyrus_(3) 140 220 220 255
 
−
2031 right_supramarginal_gyrus 80 160 20 255
 
−
2032 right_frontal_pole 100 0 100 255
 
−
2033 right_temporal_pole 70 70 70 255
 
−
2108 right_angular_and_supramarginal_gyri 230 250 230 255
 
−
3000 right_claustrum 230 250 230 255
 
−
3001 left_claustrum 230 155 215 255
 
−
3002 right_mamillary_body 130 155 95 255
 
−
3003 left_mamillary_body 155 230 255 255
 
−
3004 corpus_callosum 135 185 205 255
 
−
3005 right_fornix_of_forebrain 35 235 155 255
 
−
3007 left_fornix_of_forebrain 75 35 115 255
 
−
3008 infundibulum_of_neurohypophysis 35 195 35 255
 
−
3011 adenohypophysis 235 225 115 255
 
−
3012 neurohypophysis 220 180 205 255
 
−
15000 test_label_15000 0 0 5 255
 
−
15001 test_label_15001 255 255 5 255
 
−
50000 test_label_50000 0 0 5 255
 
−
50001 test_label_50001 255 255 5 255
 
−
#EOF
 
−
</pre>
 

Latest revision as of 15:55, 25 February 2010

Home < CCA:AtlasTools:LabelPage:Sample

Title

NAC CCA Core 2010 MRI Brain Atlas

Description

This file contains the label information that corresponds to the 2010 SPL Brain Atlas.

Credits

Author
Ion-Florin Talos MD
Michael Halle PhD
Institution
Center for Computational Anatomy Core
Neuroimage Analysis Center
Surgical Planning Lab
Brigham and Women's Hospital
Grants
National Institutes of Health (NIH)'s National Center for Research Resources (NCRR), NIH P41 RR13218.
Creation Date
02/16/2009

Imports

Links to other labeltag pages go here. The contents of those pages are imported before the data described on this page.

Lookup table information

These tables are just mediawiki tables with a couple of css classes included to make them sortable and declare them as Label Pages.

Generally, the workflow for Label Pages is to import an initial (and possibly large) table using a bulk data converter (say, from a CSV file), then make small edits through the wiki. The label tables can be broken up into smaller tables to make it easier to browse and edit them.

Atlas lookup table

integer_label text_label color notes
2 white matter of left cerebral hemisphere rgb(245,245,245)
4 left lateral ventricle rgb(120,18,134)
5 temporal horn of left lateral ventricle rgb(196,58,250)
7 white matter of cerebellum left rgb(221,248,164)
8 left cerebellar cortex rgb(230,148,34)
10 left thalamus rgb(0,118,14)
11 left caudate nucleus rgb(122,186,220)
12 left putamen rgb(236,13,176)
13 left globus pallidus pars externa rgb(12,48,255)
14 wall of third ventricle rgb(204,182,142)
15 fourth ventricle rgb(42,204,164)
17 left hippocampus rgb(220,216,20)
18 left amygdala rgb(103,255,255)
24 third ventricle (1) rgb(60,60,60)
25 left globus pallidus pars interna rgb(255,165,0)
26 left nucleus accumbens rgb(165,0,255)
27 left middle cerebellar peduncle rgb(0,255,127)
28 left hypothalamus rgb(165,42,42)
34 left superior cerebellar peduncle rgb(122,135,50)
35 pons rgb(51,50,135)
40 midbrain rgb(205,62,78)
41 white matter of right cerebral hemisphere rgb(0,225,0)
43 right lateral ventricle rgb(120,18,134)
44 temporal horn of right lateral ventricle rgb(196,58,250)
46 white matter of cerebellum right rgb(220,248,164)
47 right cerebellar cortex rgb(230,148,34)
49 right thalamus rgb(0,118,14)
50 right caudate nucleus rgb(122,186,220)
51 right putamen rgb(236,13,176)
52 right globus pallidus pars externa rgb(13,48,255)
53 right hippocampus rgb(220,216,20)
54 right amygdala rgb(103,255,255)
55 right insula rgb(80,196,98)
58 right nucleus accumbens rgb(255,165,0)
60 right hypothalamus rgb(165,42,42)
61 medulla oblongata rgb(135,206,235)
63 choroid plexus of right lateral ventricle rgb(0,200,221)
66 left substantia nigra rgb(122,135,50)
71 right substantia nigra rgb(122,135,50)
72 pineal body rgb(120,190,150)
78 left optic tract rgb(255,148,10)
79 left red nucleus rgb(255,148,10)
84 right red nucleus rgb(255,218,185)
85 optic chiasm rgb(234,169,30)
96 pellucid septum rgb(205,10,125)
100 left mammillothalamic tract rgb(124,140,178)
142 anterior commissure rgb(221,226,68)
200 right mammillothalamic tract rgb(0,50,128)
216 right optic tract rgb(255,204,102)
1000 left insula rgb(25,5,25)
1001 left superior temporal gyrus (1) rgb(25,100,40)
1002 left cingulate gyrus (1) rgb(125,100,160)
1003 left middle frontal gyrus (1) rgb(100,25,0)
1005 left cuneus rgb(220,20,100)
1006 left ambiens gyrus rgb(220,20,10)
1007 left fusiform gyrus rgb(180,220,140)
1008 left inferior parietal lobule rgb(220,60,220)
1009 left inferior temporal gyrus rgb(180,40,120)
1010 left cingulate gyrus (2) rgb(140,20,140)
1011 left lateral occipital gyrus rgb(20,30,140)
1012 left orbital gyri rgb(35,75,50)
1013 left lingual gyrus rgb(225,140,140)
1014 left straight gyrus rgb(200,35,75)
1015 left middle temporal gyrus rgb(160,100,50)
1017 left paracentral lobule rgb(20,220,60)
1018 opercular part of left inferior frontal gyrus rgb(60,220,60)
1019 orbital part of left inferior frontal gyrus rgb(220,180,140)
1020 triangular part of left inferior frontal gyrus rgb(220,60,20)
1021 left visual cortex rgb(120,100,60)
1022 left postcentral gyrus rgb(220,20,20)
1023 left cingulate gyrus (1) rgb(220,180,220)
1024 left precentral gyrus rgb(60,20,220)
1025 left precuneus rgb(160,140,180)
1026 left cingulate gyrus (3) rgb(80,20,140)
1027 left middle frontal gyrus (2) rgb(75,50,125)
1028 left superior frontal gyrus (1) rgb(20,220,160)
1029 left superior parietal lobule and precuneus rgb(20,180,140)
1030 left superior temporal gyrus rgb(140,220,220)
1031 left angular and supramarginal gyrus rgb(80,160,20)
1032 left frontal pole rgb(100,0,100)
1033 left temporal pole rgb(70,70,70)
1034 left transverse temporal gyri rgb(150,150,200)
2001 right superior temporal gyrus (2) rgb(25,100,40)
2003 right middle frontal gyrus (1) rgb(100,25,0)
2005 right cuneus rgb(220,20,100)
2006 right parahippocampal gyrus rgb(220,20,10)
2007 right fusiform gyrus rgb(180,220,140)
2008 right angular and supramarginal gyri rgb(220,60,220)
2009 right inferior temporal gyrus rgb(180,40,120)
2010 right cingulate gyrus (2) rgb(140,20,140)
2011 right lateral occipital gyrus rgb(20,30,140)
2012 right orbital gyri (1) rgb(35,75,50)
2013 right lingual gyrus rgb(225,140,140)
2014 right straight gyrus rgb(200,35,75)
2015 right middle temporal gyrus rgb(160,100,50)
2017 right paracentral lobule rgb(60,220,60)
2018 opercular part of right inferior frontal gyrus rgb(220,180,140)
2019 orbital part of right inferior frontal gyrus rgb(20,100,50)
2020 triangular part of right inferior frontal gyrus rgb(220,60,20)
2021 right visual cortex rgb(120,100,60)
2022 right postcentral gyrus rgb(220,20,20)
2023 right cingulate gyrus (1) rgb(220,180,220)
2024 right precentral gyrus rgb(60,20,220)
2025 right precuneus rgb(160,140,180)
2027 right middle frontal gyrus (1) rgb(75,50,125)
2028 right superior frontal gyrus rgb(20,220,160)
2029 right superior parietal lobule rgb(20,180,140)
2030 right superior temporal gyrus (3) rgb(140,220,220)
2031 right supramarginal gyrus rgb(80,160,20)
2032 right frontal pole rgb(100,0,100)
2033 right temporal pole rgb(70,70,70)
2108 right angular and supramarginal gyri rgb(230,250,230)
3000 right claustrum rgb(230,250,230)
3001 left claustrum rgb(230,155,215)
3002 right mamillary body rgb(130,155,95)
3003 left mamillary body rgb(155,230,255)
3004 corpus callosum rgb(135,185,205)
3005 right fornix of forebrain rgb(35,235,155)
3007 left fornix of forebrain rgb(75,35,115)
3008 infundibulum of neurohypophysis rgb(35,195,35)
3011 adenohypophysis rgb(235,225,115)
3012 neurohypophysis rgb(220,180,205)

Thalamic Nuclei Expansion

integer_label text_label color notes
500 internal medullar lamina R rgb(200,200,200)
501 internal medullar lamina L rgb(200,200,200)
502 medial geniculate body R rgb(125,250,21)
503 medial geniculate body L rgb(125,250, 21)
504 lateral geniculate body R rgb(102,178,255)
505 lateral geniculate body L rgb(102,178,255)
506 pulvinar R rgb(63,104,224)
507 pulvinar L rgb(63,104,224)
508 anterior thalamic nucleus R rgb(255,25,127) in the old SPL-BrainAtlas-Colorfile.txt L and R are mislabeled (switched)
509 anterior thalamic nucleus L rgb(255,25,127) in the old SPL-BrainAtlas-Colorfile.txt L and R are mislabeled (switched)
510 dorsomedial thalamic nucleus R rgb(60,189,130)
511 dorsomedial thalamic nucleus L rgb(60,189,130)
512 centromedian thalamic nucleus R rgb(188,181,105)
513 centromedian thalamic nucleus L rgb(188,181,105)
514 ventral anterior thalamic nucleus R rgb(254,213,0)
515 ventral anterior thalamic nucleus R rgb(254,213,0)
516 ventral lateral thalamic nucleus R rgb(60,180,180)
517 ventral lateral thalamic nucleus L rgb(60,180,180)
518 lateral posterior thalamic nucleus R rgb(204,127,0)
519 lateral posterior thalamic nucleus L rgb(204,127,0)
520 lateral dorsal thalamic nucleus R rgb(175,194,221)
521 lateral dorsal thalamic nucleus L rgb(175,194,221)
522 VPM thalamic nucleus R rgb(225,167,104)
523 VPM thalamic nucleus L rgb(225,167,104)
524 VPL thalamic nucleus R rgb(229,127,127)
525 VPL thalamic nucleus L rgb(229,127,127)

Small addon table

user interface colors
integer_label text_label color notes
0 background rgb(0,0,0) The background value is stored here because it isn't anatomical.

Output color file

An external script processes this page and produces the following color file, suitable for Slicer.

Pages suitable for generating Slicer color files should be marked with the Category "LabelPageSlicerColorFile".

TODO: Generate this file automatically as part of wiki editing.

Retrieved from "https://www.na-mic.org/w/index.php?title=CCA:AtlasTools:LabelPage:Sample&oldid=49426"