oncoprintjs 5.0.3 → 6.0.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (100) hide show
  1. package/README.md +34 -0
  2. package/dist/index.d.ts +4 -0
  3. package/dist/index.es.js +14746 -0
  4. package/dist/index.es.js.map +1 -0
  5. package/dist/index.js +14760 -0
  6. package/dist/index.js.map +1 -0
  7. package/dist/js/CachedProperty.d.ts +10 -10
  8. package/dist/js/binarysearch.d.ts +1 -1
  9. package/dist/js/bucketsort.d.ts +16 -16
  10. package/dist/js/clustering.d.ts +14 -14
  11. package/dist/js/extractrgba.d.ts +4 -4
  12. package/dist/js/haselementsininterval.d.ts +1 -1
  13. package/dist/js/heatmapcolors.d.ts +5 -4
  14. package/dist/js/makesvgelement.d.ts +1 -1
  15. package/dist/js/modelutils.d.ts +7 -7
  16. package/dist/js/oncoprint.d.ts +168 -170
  17. package/dist/js/oncoprintheaderview.d.ts +23 -22
  18. package/dist/js/oncoprintlabelview.d.ts +79 -78
  19. package/dist/js/oncoprintlegendrenderer.d.ts +32 -31
  20. package/dist/js/oncoprintminimapview.d.ts +69 -68
  21. package/dist/js/oncoprintmodel.d.ts +403 -398
  22. package/dist/js/oncoprintruleset.d.ts +176 -177
  23. package/dist/js/oncoprintshape.d.ts +67 -67
  24. package/dist/js/oncoprintshapetosvg.d.ts +2 -2
  25. package/dist/js/oncoprintshapetovertexes.d.ts +5 -5
  26. package/dist/js/oncoprinttooltip.d.ts +23 -22
  27. package/dist/js/oncoprinttrackinfoview.d.ts +40 -39
  28. package/dist/js/oncoprinttrackoptionsview.d.ts +58 -57
  29. package/dist/js/oncoprintwebglcellview.d.ts +168 -167
  30. package/dist/js/oncoprintzoomslider.d.ts +28 -27
  31. package/dist/js/polyfill.d.ts +4 -4
  32. package/dist/js/precomputedcomparator.d.ts +13 -13
  33. package/dist/js/shaders.d.ts +2 -2
  34. package/dist/js/svgfactory.d.ts +24 -23
  35. package/dist/js/utils.d.ts +16 -16
  36. package/dist/js/workers/clustering-worker.d.ts +19 -20
  37. package/dist/test/gradientCategoricalRuleset.spec.d.ts +1 -1
  38. package/dist/test/monolith.spec.d.ts +1 -1
  39. package/jest.config.ts +2 -0
  40. package/package.json +20 -26
  41. package/rollup.config.ts +14 -0
  42. package/rules/geneticrules.ts +344 -305
  43. package/server.js +11 -0
  44. package/src/img/menudots.svg +9 -9
  45. package/src/img/zoomtofit.svg +12 -12
  46. package/src/index.tsx +13 -0
  47. package/src/js/CachedProperty.ts +6 -7
  48. package/src/js/binarysearch.ts +8 -3
  49. package/src/js/bucketsort.ts +89 -47
  50. package/src/js/clustering.ts +22 -10
  51. package/src/js/extractrgba.ts +16 -12
  52. package/src/js/haselementsininterval.ts +8 -4
  53. package/src/js/heatmapcolors.ts +515 -515
  54. package/src/js/main.js +1 -1
  55. package/src/js/makesvgelement.ts +2 -2
  56. package/src/js/modelutils.ts +11 -8
  57. package/src/js/oncoprint.ts +706 -385
  58. package/src/js/oncoprintheaderview.ts +165 -125
  59. package/src/js/oncoprintlabelview.ts +388 -170
  60. package/src/js/oncoprintlegendrenderer.ts +203 -72
  61. package/src/js/oncoprintminimapview.ts +965 -423
  62. package/src/js/oncoprintmodel.ts +905 -532
  63. package/src/js/oncoprintruleset.ts +694 -379
  64. package/src/js/oncoprintshape.ts +240 -97
  65. package/src/js/oncoprintshapetosvg.ts +77 -26
  66. package/src/js/oncoprintshapetovertexes.ts +153 -48
  67. package/src/js/oncoprinttooltip.ts +58 -27
  68. package/src/js/oncoprinttrackinfoview.ts +115 -59
  69. package/src/js/oncoprinttrackoptionsview.ts +354 -187
  70. package/src/js/oncoprintwebglcellview.ts +951 -415
  71. package/src/js/oncoprintzoomslider.ts +172 -107
  72. package/src/js/polyfill.ts +7 -3
  73. package/src/js/precomputedcomparator.ts +133 -50
  74. package/src/js/shaders.ts +2 -4
  75. package/src/js/svgfactory.ts +128 -73
  76. package/src/js/utils.ts +51 -31
  77. package/src/js/workers/clustering-worker.ts +50 -42
  78. package/src/test/gradientCategoricalRuleset.spec.ts +55 -38
  79. package/src/test/monolith.spec.ts +718 -285
  80. package/test/generate_data.py +108 -0
  81. package/test/glyphmap-data.js +1041 -0
  82. package/test/heatmap-data.js +1027 -0
  83. package/test/index.html +21 -0
  84. package/test/oncoprint-glyphmap.js +79 -0
  85. package/test/oncoprint-heatmap.js +123 -0
  86. package/tsconfig.json +4 -10
  87. package/tsconfig.test.json +11 -0
  88. package/.idea/misc.xml +0 -6
  89. package/.idea/modules.xml +0 -8
  90. package/.idea/oncoprintjs.iml +0 -12
  91. package/.idea/vcs.xml +0 -6
  92. package/.idea/workspace.xml +0 -105
  93. package/dist/.gitkeep +0 -0
  94. package/dist/js/minimaputils.d.ts +0 -0
  95. package/dist/oncoprint.bundle.js +0 -44313
  96. package/jest.config.js +0 -12
  97. package/src/js/minimaputils.ts +0 -0
  98. package/typings/custom.d.ts +0 -7
  99. package/typings/missing.d.ts +0 -7
  100. package/webpack.config.js +0 -43
package/test/glyphmap-data.js ADDED
@@ -0,0 +1,1041 @@
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+ var ga_data = [
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+ {
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+ gene: 'GENE0',
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+ desc: 'Annotation for GENE0',
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+ data: [
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+ {
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+ disp_cna: 'hetloss',
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+ disp_mut: 'promoter_rec',
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+ disp_germ: 'true',
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+ sample: 'TCGA-00',
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+ },
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+ {
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+ disp_mrna: 'up',
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+ disp_prot: 'up',
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+ sample: 'TCGA-01',
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+ },
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+ {
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+ disp_cna: 'hetloss',
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+ sample: 'TCGA-02',
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+ },
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+ {
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+ sample: 'TCGA-03',
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+ disp_germ: 'true',
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+ disp_mut: 'trunc',
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+ },
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+ {
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-04',
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+ },
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+ {
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+ sample: 'TCGA-05',
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+ },
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+ {
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+ sample: 'TCGA-06',
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+ },
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+ {
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+ disp_cna: 'homdel',
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+ sample: 'TCGA-07',
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+ disp_mrna: 'up',
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+ },
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+ {
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+ sample: 'TCGA-08',
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+ },
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+ {
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+ sample: 'TCGA-09',
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+ },
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+ {
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+ disp_cna: 'amp',
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+ sample: 'TCGA-10',
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+ disp_mrna: 'up',
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+ },
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+ {
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+ disp_mrna: 'up',
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-11',
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+ },
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+ {
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+ disp_cna: 'homdel',
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+ disp_mut: 'promoter',
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+ sample: 'TCGA-12',
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+ },
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+ {
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+ disp_mut: 'promoter',
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+ sample: 'TCGA-13',
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+ },
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+ {
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+ disp_mut: 'promoter',
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+ sample: 'TCGA-14',
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+ },
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+ {
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+ disp_mrna: 'up',
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+ sample: 'TCGA-15',
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+ },
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+ {
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+ disp_mut: 'trunc',
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+ sample: 'TCGA-16',
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+ },
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+ {
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+ disp_mrna: 'down',
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+ sample: 'TCGA-17',
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+ },
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+ {
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+ sample: 'TCGA-18',
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+ },
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+ {
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+ disp_prot: 'up',
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+ sample: 'TCGA-19',
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+ },
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+ {
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+ disp_prot: 'down',
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+ sample: 'TCGA-20',
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+ },
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+ {
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+ disp_mrna: 'down',
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+ sample: 'TCGA-21',
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+ },
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+ {
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+ disp_cna: 'hetloss',
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+ disp_mut: 'trunc',
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+ sample: 'TCGA-22',
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+ disp_mrna: 'up',
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+ },
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+ {
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+ sample: 'TCGA-23',
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+ },
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+ {
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+ sample: 'TCGA-24',
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+ },
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+ {
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+ disp_mrna: 'up',
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+ sample: 'TCGA-25',
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+ },
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+ {
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+ disp_cna: 'hetloss',
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+ sample: 'TCGA-26',
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+ },
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+ {
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+ sample: 'TCGA-27',
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+ },
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+ {
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+ disp_mut: 'trunc',
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+ sample: 'TCGA-28',
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+ },
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+ {
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+ sample: 'TCGA-29',
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+ },
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+ {
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+ sample: 'TCGA-30',
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+ },
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+ {
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+ sample: 'TCGA-31',
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+ },
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+ {
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+ disp_cna: 'amp',
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-32',
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+ },
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+ {
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+ disp_mut: 'trunc',
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+ sample: 'TCGA-33',
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+ },
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+ {
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+ sample: 'TCGA-34',
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+ },
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+ {
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+ disp_mut: 'promoter',
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+ sample: 'TCGA-35',
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+ },
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+ {
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+ disp_cna: 'gain',
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+ disp_prot: 'down',
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+ sample: 'TCGA-36',
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+ },
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+ {
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+ disp_cna: 'gain',
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-37',
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+ },
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+ {
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-38',
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+ },
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+ {
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+ sample: 'TCGA-39',
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+ },
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+ {
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+ disp_prot: 'down',
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+ sample: 'TCGA-40',
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+ },
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+ {
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+ disp_prot: 'up',
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+ sample: 'TCGA-41',
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+ },
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+ {
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+ disp_mrna: 'down',
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+ disp_prot: 'down',
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+ sample: 'TCGA-42',
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+ },
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+ {
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+ disp_prot: 'down',
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+ sample: 'TCGA-43',
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+ },
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+ {
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+ disp_cna: 'gain',
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+ sample: 'TCGA-44',
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+ },
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+ {
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+ disp_cna: 'amp',
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+ sample: 'TCGA-45',
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+ },
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+ {
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+ disp_cna: 'amp',
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+ disp_prot: 'up',
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+ disp_mut: 'trunc',
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+ sample: 'TCGA-46',
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+ disp_mrna: 'up',
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+ },
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+ {
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+ disp_mut: 'promoter',
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+ sample: 'TCGA-47',
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+ },
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+ {
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+ disp_cna: 'amp',
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+ sample: 'TCGA-48',
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+ },
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+ {
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+ disp_prot: 'down',
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+ sample: 'TCGA-49',
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+ },
210
+ ],
211
+ },
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+ {
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+ gene: 'GENE1',
214
+ desc: 'Annotation for GENE1',
215
+ data: [
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+ {
217
+ sample: 'TCGA-00',
218
+ },
219
+ {
220
+ sample: 'TCGA-01',
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+ },
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+ {
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-02',
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+ },
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+ {
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+ disp_mrna: 'down',
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+ disp_prot: 'up',
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+ disp_mut: 'trunc',
230
+ sample: 'TCGA-03',
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+ },
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+ {
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+ disp_mut: 'missense',
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+ sample: 'TCGA-04',
235
+ },
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+ {
237
+ sample: 'TCGA-05',
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+ },
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+ {
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+ disp_prot: 'up',
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+ disp_mut: 'missense',
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+ sample: 'TCGA-06',
243
+ },
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+ {
245
+ sample: 'TCGA-07',
246
+ },
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+ {
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+ sample: 'TCGA-08',
249
+ },
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+ {
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+ sample: 'TCGA-09',
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+ },
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+ {
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+ disp_cna: 'homdel',
255
+ disp_mut: 'missense',
256
+ sample: 'TCGA-10',
257
+ },
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+ {
259
+ disp_prot: 'up',
260
+ sample: 'TCGA-11',
261
+ },
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+ {
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+ disp_mrna: 'up',
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+ sample: 'TCGA-12',
265
+ },
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+ {
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+ disp_cna: 'gain',
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+ disp_mut: 'promoter',
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+ sample: 'TCGA-13',
270
+ },
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+ {
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+ disp_cna: 'diploid',
273
+ sample: 'TCGA-14',
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+ },
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+ {
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+ disp_cna: 'gain',
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+ disp_mut: 'promoter',
278
+ sample: 'TCGA-15',
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+ },
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+ {
281
+ sample: 'TCGA-16',
282
+ },
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+ {
284
+ sample: 'TCGA-17',
285
+ },
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+ {
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+ disp_cna: 'diploid',
288
+ disp_mut: 'trunc',
289
+ sample: 'TCGA-18',
290
+ disp_mrna: 'up',
291
+ },
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+ {
293
+ disp_mrna: 'up',
294
+ disp_prot: 'up',
295
+ sample: 'TCGA-19',
296
+ },
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+ {
298
+ disp_prot: 'down',
299
+ disp_mut: 'missense',
300
+ sample: 'TCGA-20',
301
+ },
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+ {
303
+ disp_cna: 'hetloss',
304
+ sample: 'TCGA-21',
305
+ },
306
+ {
307
+ disp_mut: 'inframe',
308
+ sample: 'TCGA-22',
309
+ },
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+ {
311
+ disp_cna: 'amp',
312
+ sample: 'TCGA-23',
313
+ },
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+ {
315
+ sample: 'TCGA-24',
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+ },
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+ {
318
+ disp_mrna: 'down',
319
+ sample: 'TCGA-25',
320
+ },
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+ {
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+ disp_mrna: 'up',
323
+ disp_mut: 'inframe',
324
+ sample: 'TCGA-26',
325
+ },
326
+ {
327
+ disp_mut: 'inframe',
328
+ sample: 'TCGA-27',
329
+ },
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+ {
331
+ disp_cna: 'homdel',
332
+ sample: 'TCGA-28',
333
+ },
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+ {
335
+ disp_cna: 'gain',
336
+ sample: 'TCGA-29',
337
+ },
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+ {
339
+ sample: 'TCGA-30',
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+ },
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+ {
342
+ disp_mut: 'promoter',
343
+ sample: 'TCGA-31',
344
+ },
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+ {
346
+ disp_prot: 'down',
347
+ sample: 'TCGA-32',
348
+ },
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+ {
350
+ sample: 'TCGA-33',
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+ },
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+ {
353
+ sample: 'TCGA-34',
354
+ },
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+ {
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+ sample: 'TCGA-35',
357
+ },
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+ {
359
+ disp_cna: 'amp',
360
+ disp_prot: 'up',
361
+ sample: 'TCGA-36',
362
+ },
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+ {
364
+ disp_cna: 'amp',
365
+ disp_prot: 'down',
366
+ sample: 'TCGA-37',
367
+ disp_mrna: 'down',
368
+ },
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+ {
370
+ sample: 'TCGA-38',
371
+ },
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+ {
373
+ sample: 'TCGA-39',
374
+ },
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+ {
376
+ sample: 'TCGA-40',
377
+ },
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+ {
379
+ disp_cna: 'hetloss',
380
+ disp_prot: 'up',
381
+ disp_mut: 'missense',
382
+ sample: 'TCGA-41',
383
+ disp_mrna: 'up',
384
+ },
385
+ {
386
+ disp_mut: 'trunc',
387
+ sample: 'TCGA-42',
388
+ },
389
+ {
390
+ disp_cna: 'homdel',
391
+ disp_mut: 'promoter',
392
+ sample: 'TCGA-43',
393
+ },
394
+ {
395
+ sample: 'TCGA-44',
396
+ },
397
+ {
398
+ disp_cna: 'diploid',
399
+ disp_mut: 'inframe',
400
+ sample: 'TCGA-45',
401
+ disp_mrna: 'up',
402
+ },
403
+ {
404
+ sample: 'TCGA-46',
405
+ },
406
+ {
407
+ disp_mut: 'inframe',
408
+ sample: 'TCGA-47',
409
+ },
410
+ {
411
+ disp_mrna: 'down',
412
+ sample: 'TCGA-48',
413
+ },
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+ {
415
+ disp_cna: 'diploid',
416
+ disp_prot: 'up',
417
+ sample: 'TCGA-49',
418
+ },
419
+ ],
420
+ },
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+ {
422
+ gene: 'GENE2',
423
+ desc: 'Annotation for GENE2',
424
+ data: [
425
+ {
426
+ disp_cna: 'homdel',
427
+ sample: 'TCGA-00',
428
+ },
429
+ {
430
+ sample: 'TCGA-01',
431
+ },
432
+ {
433
+ sample: 'TCGA-02',
434
+ },
435
+ {
436
+ disp_cna: 'homdel',
437
+ disp_prot: 'up',
438
+ disp_mut: 'promoter',
439
+ sample: 'TCGA-03',
440
+ },
441
+ {
442
+ disp_prot: 'up',
443
+ disp_mut: 'promoter',
444
+ sample: 'TCGA-04',
445
+ },
446
+ {
447
+ disp_prot: 'up',
448
+ disp_mut: 'missense',
449
+ sample: 'TCGA-05',
450
+ },
451
+ {
452
+ disp_mrna: 'up',
453
+ sample: 'TCGA-06',
454
+ },
455
+ {
456
+ disp_cna: 'gain',
457
+ sample: 'TCGA-07',
458
+ },
459
+ {
460
+ disp_mut: 'promoter',
461
+ sample: 'TCGA-08',
462
+ },
463
+ {
464
+ disp_prot: 'down',
465
+ sample: 'TCGA-09',
466
+ },
467
+ {
468
+ disp_cna: 'gain',
469
+ disp_mut: 'missense',
470
+ sample: 'TCGA-10',
471
+ },
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+ {
473
+ disp_mrna: 'up',
474
+ disp_prot: 'up',
475
+ disp_mut: 'inframe',
476
+ sample: 'TCGA-11',
477
+ },
478
+ {
479
+ disp_mrna: 'up',
480
+ sample: 'TCGA-12',
481
+ },
482
+ {
483
+ sample: 'TCGA-13',
484
+ },
485
+ {
486
+ disp_cna: 'gain',
487
+ disp_mut: 'missense',
488
+ sample: 'TCGA-14',
489
+ },
490
+ {
491
+ sample: 'TCGA-15',
492
+ },
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+ {
494
+ disp_prot: 'up',
495
+ disp_mut: 'trunc',
496
+ sample: 'TCGA-16',
497
+ },
498
+ {
499
+ disp_mrna: 'up',
500
+ sample: 'TCGA-17',
501
+ },
502
+ {
503
+ disp_cna: 'amp',
504
+ sample: 'TCGA-18',
505
+ disp_mrna: 'up',
506
+ },
507
+ {
508
+ sample: 'TCGA-19',
509
+ },
510
+ {
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+ disp_cna: 'diploid',
512
+ disp_prot: 'down',
513
+ sample: 'TCGA-20',
514
+ },
515
+ {
516
+ disp_prot: 'down',
517
+ sample: 'TCGA-21',
518
+ },
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+ {
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+ disp_mrna: 'down',
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+ disp_mut: 'missense',
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+ sample: 'TCGA-22',
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+ },
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+ {
525
+ disp_mut: 'missense',
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+ sample: 'TCGA-23',
527
+ },
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+ {
529
+ disp_prot: 'up',
530
+ sample: 'TCGA-24',
531
+ },
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+ {
533
+ disp_prot: 'up',
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+ disp_mut: 'inframe',
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+ sample: 'TCGA-25',
536
+ },
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+ {
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+ disp_cna: 'gain',
539
+ disp_mut: 'missense',
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+ sample: 'TCGA-26',
541
+ },
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+ {
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+ disp_mrna: 'down',
544
+ sample: 'TCGA-27',
545
+ },
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+ {
547
+ disp_mrna: 'up',
548
+ disp_prot: 'up',
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+ sample: 'TCGA-28',
550
+ },
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+ {
552
+ sample: 'TCGA-29',
553
+ },
554
+ {
555
+ sample: 'TCGA-30',
556
+ },
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+ {
558
+ disp_cna: 'homdel',
559
+ disp_mut: 'promoter',
560
+ sample: 'TCGA-31',
561
+ disp_mrna: 'up',
562
+ },
563
+ {
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+ disp_prot: 'down',
565
+ sample: 'TCGA-32',
566
+ },
567
+ {
568
+ disp_cna: 'homdel',
569
+ sample: 'TCGA-33',
570
+ },
571
+ {
572
+ disp_prot: 'up',
573
+ disp_mut: 'promoter',
574
+ sample: 'TCGA-34',
575
+ },
576
+ {
577
+ disp_mut: 'trunc',
578
+ sample: 'TCGA-35',
579
+ },
580
+ {
581
+ sample: 'TCGA-36',
582
+ },
583
+ {
584
+ sample: 'TCGA-37',
585
+ },
586
+ {
587
+ disp_mrna: 'down',
588
+ disp_mut: 'missense',
589
+ sample: 'TCGA-38',
590
+ },
591
+ {
592
+ disp_mrna: 'up',
593
+ sample: 'TCGA-39',
594
+ },
595
+ {
596
+ sample: 'TCGA-40',
597
+ },
598
+ {
599
+ disp_mut: 'inframe',
600
+ sample: 'TCGA-41',
601
+ },
602
+ {
603
+ disp_mut: 'trunc',
604
+ sample: 'TCGA-42',
605
+ },
606
+ {
607
+ sample: 'TCGA-43',
608
+ },
609
+ {
610
+ disp_prot: 'down',
611
+ sample: 'TCGA-44',
612
+ },
613
+ {
614
+ disp_cna: 'diploid',
615
+ sample: 'TCGA-45',
616
+ disp_mrna: 'down',
617
+ },
618
+ {
619
+ disp_cna: 'amp',
620
+ sample: 'TCGA-46',
621
+ },
622
+ {
623
+ disp_mrna: 'down',
624
+ sample: 'TCGA-47',
625
+ },
626
+ {
627
+ sample: 'TCGA-48',
628
+ },
629
+ {
630
+ disp_cna: 'amp',
631
+ disp_mut: 'inframe',
632
+ sample: 'TCGA-49',
633
+ disp_mrna: 'up',
634
+ },
635
+ ],
636
+ },
637
+ {
638
+ gene: 'GENE3',
639
+ desc: 'Annotation for GENE3',
640
+ data: [
641
+ {
642
+ disp_prot: 'down',
643
+ disp_mut: 'trunc',
644
+ sample: 'TCGA-00',
645
+ },
646
+ {
647
+ disp_cna: 'diploid',
648
+ sample: 'TCGA-01',
649
+ },
650
+ {
651
+ sample: 'TCGA-02',
652
+ },
653
+ {
654
+ disp_prot: 'up',
655
+ sample: 'TCGA-03',
656
+ },
657
+ {
658
+ sample: 'TCGA-04',
659
+ },
660
+ {
661
+ sample: 'TCGA-05',
662
+ },
663
+ {
664
+ sample: 'TCGA-06',
665
+ },
666
+ {
667
+ disp_mrna: 'down',
668
+ sample: 'TCGA-07',
669
+ },
670
+ {
671
+ sample: 'TCGA-08',
672
+ },
673
+ {
674
+ sample: 'TCGA-09',
675
+ },
676
+ {
677
+ disp_cna: 'amp',
678
+ disp_prot: 'up',
679
+ disp_mut: 'missense',
680
+ sample: 'TCGA-10',
681
+ disp_mrna: 'up',
682
+ },
683
+ {
684
+ sample: 'TCGA-11',
685
+ },
686
+ {
687
+ disp_cna: 'diploid',
688
+ disp_prot: 'down',
689
+ sample: 'TCGA-12',
690
+ disp_mrna: 'down',
691
+ },
692
+ {
693
+ disp_cna: 'gain',
694
+ sample: 'TCGA-13',
695
+ },
696
+ {
697
+ disp_mut: 'missense',
698
+ sample: 'TCGA-14',
699
+ },
700
+ {
701
+ disp_cna: 'homdel',
702
+ disp_mut: 'missense',
703
+ sample: 'TCGA-15',
704
+ },
705
+ {
706
+ sample: 'TCGA-16',
707
+ },
708
+ {
709
+ disp_cna: 'amp',
710
+ sample: 'TCGA-17',
711
+ },
712
+ {
713
+ disp_mut: 'trunc',
714
+ sample: 'TCGA-18',
715
+ },
716
+ {
717
+ sample: 'TCGA-19',
718
+ },
719
+ {
720
+ sample: 'TCGA-20',
721
+ },
722
+ {
723
+ disp_cna: 'homdel',
724
+ sample: 'TCGA-21',
725
+ },
726
+ {
727
+ disp_mrna: 'up',
728
+ sample: 'TCGA-22',
729
+ },
730
+ {
731
+ disp_mut: 'inframe',
732
+ sample: 'TCGA-23',
733
+ },
734
+ {
735
+ disp_mut: 'trunc',
736
+ sample: 'TCGA-24',
737
+ },
738
+ {
739
+ sample: 'TCGA-25',
740
+ },
741
+ {
742
+ sample: 'TCGA-26',
743
+ },
744
+ {
745
+ disp_cna: 'hetloss',
746
+ sample: 'TCGA-27',
747
+ },
748
+ {
749
+ disp_prot: 'up',
750
+ disp_mut: 'trunc',
751
+ sample: 'TCGA-28',
752
+ },
753
+ {
754
+ disp_cna: 'homdel',
755
+ sample: 'TCGA-29',
756
+ disp_mrna: 'down',
757
+ },
758
+ {
759
+ sample: 'TCGA-30',
760
+ },
761
+ {
762
+ disp_cna: 'homdel',
763
+ disp_mut: 'promoter',
764
+ sample: 'TCGA-31',
765
+ },
766
+ {
767
+ sample: 'TCGA-32',
768
+ },
769
+ {
770
+ sample: 'TCGA-33',
771
+ },
772
+ {
773
+ disp_cna: 'gain',
774
+ disp_prot: 'up',
775
+ sample: 'TCGA-34',
776
+ },
777
+ {
778
+ sample: 'TCGA-35',
779
+ },
780
+ {
781
+ disp_mrna: 'up',
782
+ disp_prot: 'up',
783
+ disp_mut: 'inframe',
784
+ sample: 'TCGA-36',
785
+ },
786
+ {
787
+ disp_mrna: 'up',
788
+ disp_mut: 'trunc',
789
+ sample: 'TCGA-37',
790
+ },
791
+ {
792
+ disp_cna: 'hetloss',
793
+ sample: 'TCGA-38',
794
+ },
795
+ {
796
+ disp_mut: 'inframe',
797
+ sample: 'TCGA-39',
798
+ },
799
+ {
800
+ sample: 'TCGA-40',
801
+ },
802
+ {
803
+ disp_mrna: 'up',
804
+ sample: 'TCGA-41',
805
+ },
806
+ {
807
+ disp_cna: 'amp',
808
+ sample: 'TCGA-42',
809
+ },
810
+ {
811
+ sample: 'TCGA-43',
812
+ },
813
+ {
814
+ disp_mut: 'promoter',
815
+ sample: 'TCGA-44',
816
+ },
817
+ {
818
+ sample: 'TCGA-45',
819
+ },
820
+ {
821
+ sample: 'TCGA-46',
822
+ },
823
+ {
824
+ disp_prot: 'down',
825
+ disp_mut: 'promoter',
826
+ sample: 'TCGA-47',
827
+ },
828
+ {
829
+ sample: 'TCGA-48',
830
+ },
831
+ {
832
+ disp_prot: 'up',
833
+ disp_mut: 'promoter',
834
+ sample: 'TCGA-49',
835
+ },
836
+ ],
837
+ },
838
+ {
839
+ gene: 'GENE4',
840
+ desc: 'Annotation for GENE4',
841
+ data: [
842
+ {
843
+ disp_cna: 'diploid',
844
+ sample: 'TCGA-00',
845
+ },
846
+ {
847
+ sample: 'TCGA-01',
848
+ },
849
+ {
850
+ sample: 'TCGA-02',
851
+ },
852
+ {
853
+ disp_cna: 'amp',
854
+ disp_mut: 'trunc',
855
+ sample: 'TCGA-03',
856
+ },
857
+ {
858
+ disp_mut: 'inframe',
859
+ sample: 'TCGA-04',
860
+ },
861
+ {
862
+ sample: 'TCGA-05',
863
+ },
864
+ {
865
+ disp_cna: 'amp',
866
+ sample: 'TCGA-06',
867
+ },
868
+ {
869
+ sample: 'TCGA-07',
870
+ },
871
+ {
872
+ sample: 'TCGA-08',
873
+ },
874
+ {
875
+ disp_prot: 'up',
876
+ sample: 'TCGA-09',
877
+ },
878
+ {
879
+ disp_mrna: 'down',
880
+ sample: 'TCGA-10',
881
+ },
882
+ {
883
+ disp_cna: 'gain',
884
+ sample: 'TCGA-11',
885
+ },
886
+ {
887
+ sample: 'TCGA-12',
888
+ },
889
+ {
890
+ disp_cna: 'amp',
891
+ sample: 'TCGA-13',
892
+ },
893
+ {
894
+ sample: 'TCGA-14',
895
+ },
896
+ {
897
+ disp_prot: 'down',
898
+ sample: 'TCGA-15',
899
+ },
900
+ {
901
+ disp_cna: 'homdel',
902
+ sample: 'TCGA-16',
903
+ },
904
+ {
905
+ disp_mut: 'promoter',
906
+ sample: 'TCGA-17',
907
+ },
908
+ {
909
+ disp_cna: 'homdel',
910
+ sample: 'TCGA-18',
911
+ },
912
+ {
913
+ disp_prot: 'up',
914
+ sample: 'TCGA-19',
915
+ },
916
+ {
917
+ disp_cna: 'hetloss',
918
+ sample: 'TCGA-20',
919
+ },
920
+ {
921
+ sample: 'TCGA-21',
922
+ },
923
+ {
924
+ disp_mrna: 'down',
925
+ disp_prot: 'down',
926
+ sample: 'TCGA-22',
927
+ },
928
+ {
929
+ disp_mrna: 'up',
930
+ sample: 'TCGA-23',
931
+ },
932
+ {
933
+ disp_prot: 'down',
934
+ sample: 'TCGA-24',
935
+ },
936
+ {
937
+ sample: 'TCGA-25',
938
+ },
939
+ {
940
+ disp_cna: 'hetloss',
941
+ disp_mut: 'promoter',
942
+ sample: 'TCGA-26',
943
+ },
944
+ {
945
+ sample: 'TCGA-27',
946
+ },
947
+ {
948
+ disp_mrna: 'up',
949
+ disp_prot: 'up',
950
+ sample: 'TCGA-28',
951
+ },
952
+ {
953
+ sample: 'TCGA-29',
954
+ },
955
+ {
956
+ sample: 'TCGA-30',
957
+ },
958
+ {
959
+ disp_prot: 'up',
960
+ sample: 'TCGA-31',
961
+ },
962
+ {
963
+ disp_cna: 'gain',
964
+ sample: 'TCGA-32',
965
+ disp_mrna: 'down',
966
+ },
967
+ {
968
+ disp_cna: 'gain',
969
+ sample: 'TCGA-33',
970
+ },
971
+ {
972
+ disp_mrna: 'down',
973
+ disp_prot: 'up',
974
+ sample: 'TCGA-34',
975
+ },
976
+ {
977
+ disp_cna: 'amp',
978
+ sample: 'TCGA-35',
979
+ },
980
+ {
981
+ disp_mut: 'missense',
982
+ sample: 'TCGA-36',
983
+ },
984
+ {
985
+ sample: 'TCGA-37',
986
+ },
987
+ {
988
+ disp_prot: 'up',
989
+ sample: 'TCGA-38',
990
+ },
991
+ {
992
+ sample: 'TCGA-39',
993
+ },
994
+ {
995
+ sample: 'TCGA-40',
996
+ },
997
+ {
998
+ disp_cna: 'gain',
999
+ sample: 'TCGA-41',
1000
+ },
1001
+ {
1002
+ disp_cna: 'homdel',
1003
+ sample: 'TCGA-42',
1004
+ disp_mrna: 'down',
1005
+ },
1006
+ {
1007
+ disp_mrna: 'down',
1008
+ disp_prot: 'up',
1009
+ sample: 'TCGA-43',
1010
+ },
1011
+ {
1012
+ disp_mut: 'promoter',
1013
+ sample: 'TCGA-44',
1014
+ },
1015
+ {
1016
+ disp_prot: 'up',
1017
+ sample: 'TCGA-45',
1018
+ },
1019
+ {
1020
+ sample: 'TCGA-46',
1021
+ },
1022
+ {
1023
+ disp_mrna: 'down',
1024
+ disp_prot: 'up',
1025
+ disp_mut: 'inframe',
1026
+ sample: 'TCGA-47',
1027
+ },
1028
+ {
1029
+ disp_cna: 'diploid',
1030
+ disp_mut: 'missense',
1031
+ sample: 'TCGA-48',
1032
+ },
1033
+ {
1034
+ disp_cna: 'homdel',
1035
+ disp_prot: 'up',
1036
+ sample: 'TCGA-49',
1037
+ disp_mrna: 'up',
1038
+ },
1039
+ ],
1040
+ },
1041
+ ];