loom-browser 0.0.1 → 0.0.3

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 (192) hide show
  1. package/dist/loom.esm.js +27 -21
  2. package/dist/loom.esm.min.js +1 -1
  3. package/dist/loom.esm.min.js.map +1 -1
  4. package/dist/loom.js +27 -21
  5. package/dist/loom.min.js +1 -1
  6. package/dist/loom.min.js.map +1 -1
  7. package/dist/types/commandDispatcher.d.ts +22 -1
  8. package/dist/types/gtx/zstdWasm.d.ts +4 -1
  9. package/dist/types/gtx/zstdWasmInlined.d.ts +6 -0
  10. package/dist/types/index.d.ts +1 -1
  11. package/dist/types/remoteProtocol.d.ts +2 -0
  12. package/package.json +8 -2
  13. package/dist/igv.d.ts +0 -667
  14. package/dist/igv.esm.js +0 -76708
  15. package/dist/igv.esm.min.js +0 -26
  16. package/dist/igv.esm.min.js.map +0 -1
  17. package/dist/igv.js +0 -76716
  18. package/dist/igv.min.js +0 -26
  19. package/dist/igv.min.js.map +0 -1
  20. package/dist/loom.d.ts +0 -667
  21. package/dist/types/agent/index.d.ts +0 -4
  22. package/dist/types/agent/stateProjection.d.ts +0 -115
  23. package/dist/types/agent/trackSelector.d.ts +0 -31
  24. package/dist/types/baseTrackCanvas.d.ts +0 -62
  25. package/dist/types/bigwig/binaryParser.d.ts +0 -25
  26. package/dist/types/bigwig/bpTree.d.ts +0 -40
  27. package/dist/types/bigwig/bwReader.d.ts +0 -69
  28. package/dist/types/bigwig/chromTree.d.ts +0 -28
  29. package/dist/types/bigwig/inflate.d.ts +0 -9
  30. package/dist/types/bigwig/rangeReader.d.ts +0 -48
  31. package/dist/types/bigwig/rpTree.d.ts +0 -27
  32. package/dist/types/dataSources/dynseqDataSource.d.ts +0 -20
  33. package/dist/types/dynseqRenderer.d.ts +0 -37
  34. package/dist/types/geneRenderer.d.ts +0 -17
  35. package/dist/types/geneThemes.d.ts +0 -11
  36. package/dist/types/geneTrackCanvas.d.ts +0 -46
  37. package/dist/types/renderTheme.d.ts +0 -72
  38. package/dist/types/renderThemePresets.d.ts +0 -16
  39. package/dist/types/rulerRenderer.d.ts +0 -14
  40. package/dist/types/rulerTrackCanvas.d.ts +0 -32
  41. package/dist/types/src/bigwig/index.d.ts +0 -66
  42. package/dist/types/src/canvasProvider.d.ts +0 -36
  43. package/dist/types/src/commandDispatcher.d.ts +0 -220
  44. package/dist/types/src/contextMenu.d.ts +0 -64
  45. package/dist/types/src/contextMenuProvider.d.ts +0 -25
  46. package/dist/types/src/data/cachedSequence.d.ts +0 -19
  47. package/dist/types/src/data/ucscApi.d.ts +0 -21
  48. package/dist/types/src/data/ucscSequence.d.ts +0 -19
  49. package/dist/types/src/dataLifecycle.d.ts +0 -16
  50. package/dist/types/src/dataSources/bigWigDataSource.d.ts +0 -24
  51. package/dist/types/src/dataSources/dataSourceCacheKey.d.ts +0 -9
  52. package/dist/types/src/dataSources/featureSourceFactory.d.ts +0 -46
  53. package/dist/types/src/dataSources/geneDataSource.d.ts +0 -16
  54. package/dist/types/src/dataSources/gtxDataSource.d.ts +0 -42
  55. package/dist/types/src/dataSources/sequenceDataSource.d.ts +0 -15
  56. package/dist/types/src/dataSources/textFeatureSource.d.ts +0 -63
  57. package/dist/types/src/decode/bed.d.ts +0 -64
  58. package/dist/types/src/decode/bedpe.d.ts +0 -36
  59. package/dist/types/src/decode/exonUtils.d.ts +0 -29
  60. package/dist/types/src/decode/gff.d.ts +0 -58
  61. package/dist/types/src/decode/interact.d.ts +0 -19
  62. package/dist/types/src/decode/ucsc.d.ts +0 -56
  63. package/dist/types/src/events.d.ts +0 -23
  64. package/dist/types/src/export/canvas2svg.d.ts +0 -166
  65. package/dist/types/src/export/index.d.ts +0 -2
  66. package/dist/types/src/featureCache.d.ts +0 -69
  67. package/dist/types/src/formats/featureParser.d.ts +0 -72
  68. package/dist/types/src/formats/formatDetection.d.ts +0 -46
  69. package/dist/types/src/genome/chromAlias.d.ts +0 -46
  70. package/dist/types/src/genome/chromSizes.d.ts +0 -53
  71. package/dist/types/src/genome/genome.d.ts +0 -51
  72. package/dist/types/src/genomeBrowser.d.ts +0 -189
  73. package/dist/types/src/gtx/fetchCoordinator.d.ts +0 -34
  74. package/dist/types/src/gtx/gtxReader.d.ts +0 -144
  75. package/dist/types/src/gtx/index.d.ts +0 -40
  76. package/dist/types/src/gtx/zstdWasm.d.ts +0 -22
  77. package/dist/types/src/headlessGenomeBrowser.d.ts +0 -450
  78. package/dist/types/src/index.d.ts +0 -123
  79. package/dist/types/src/intervalTree.d.ts +0 -56
  80. package/dist/types/src/io/binaryParser.d.ts +0 -25
  81. package/dist/types/src/io/index.d.ts +0 -7
  82. package/dist/types/src/io/rangeReader.d.ts +0 -48
  83. package/dist/types/src/locusUtils.d.ts +0 -37
  84. package/dist/types/src/pack.d.ts +0 -41
  85. package/dist/types/src/popupProvider.d.ts +0 -22
  86. package/dist/types/src/remoteProtocol.d.ts +0 -81
  87. package/dist/types/src/roi/index.d.ts +0 -3
  88. package/dist/types/src/roi/roiRenderer.d.ts +0 -24
  89. package/dist/types/src/roi/roiSet.d.ts +0 -41
  90. package/dist/types/src/sequence/sequenceUtils.d.ts +0 -44
  91. package/dist/types/src/session.d.ts +0 -55
  92. package/dist/types/src/stateProjection.d.ts +0 -115
  93. package/dist/types/src/tabix/index.d.ts +0 -48
  94. package/dist/types/src/themes/index.d.ts +0 -3
  95. package/dist/types/src/themes/renderTheme.d.ts +0 -86
  96. package/dist/types/src/themes/renderThemePresets.d.ts +0 -16
  97. package/dist/types/src/trackRegistry.d.ts +0 -81
  98. package/dist/types/src/trackSelector.d.ts +0 -31
  99. package/dist/types/src/tracks/annotation/annotationRenderer.d.ts +0 -17
  100. package/dist/types/src/tracks/annotation/annotationThemes.d.ts +0 -11
  101. package/dist/types/src/tracks/annotation/annotationTrackCanvas.d.ts +0 -58
  102. package/dist/types/src/tracks/annotation/index.d.ts +0 -4
  103. package/dist/types/src/tracks/axis/axisRenderer.d.ts +0 -19
  104. package/dist/types/src/tracks/axis/index.d.ts +0 -1
  105. package/dist/types/src/tracks/baseTrackCanvas.d.ts +0 -113
  106. package/dist/types/src/tracks/dynseq/dynseqRenderer.d.ts +0 -38
  107. package/dist/types/src/tracks/dynseq/index.d.ts +0 -1
  108. package/dist/types/src/tracks/index.d.ts +0 -7
  109. package/dist/types/src/tracks/interaction/index.d.ts +0 -4
  110. package/dist/types/src/tracks/interaction/interactionRenderer.d.ts +0 -52
  111. package/dist/types/src/tracks/interaction/interactionTrackCanvas.d.ts +0 -54
  112. package/dist/types/src/tracks/ruler/index.d.ts +0 -3
  113. package/dist/types/src/tracks/ruler/rulerRenderer.d.ts +0 -25
  114. package/dist/types/src/tracks/ruler/rulerTrackCanvas.d.ts +0 -43
  115. package/dist/types/src/tracks/sequence/index.d.ts +0 -5
  116. package/dist/types/src/tracks/sequence/sequenceRenderer.d.ts +0 -34
  117. package/dist/types/src/tracks/sequence/sequenceThemes.d.ts +0 -11
  118. package/dist/types/src/tracks/sequence/sequenceTrackCanvas.d.ts +0 -67
  119. package/dist/types/src/tracks/wig/index.d.ts +0 -5
  120. package/dist/types/src/tracks/wig/wigRenderer.d.ts +0 -15
  121. package/dist/types/src/tracks/wig/wigSummary.d.ts +0 -31
  122. package/dist/types/src/tracks/wig/wigThemes.d.ts +0 -15
  123. package/dist/types/src/tracks/wig/wigTrackCanvas.d.ts +0 -82
  124. package/dist/types/src/types.d.ts +0 -885
  125. package/dist/types/src/ui/components/LoomBrowserShell.d.ts +0 -52
  126. package/dist/types/src/ui/components/LoomChromosomeSelect.d.ts +0 -18
  127. package/dist/types/src/ui/components/LoomContextMenu.d.ts +0 -39
  128. package/dist/types/src/ui/components/LoomExportControls.d.ts +0 -13
  129. package/dist/types/src/ui/components/LoomInputDialog.d.ts +0 -27
  130. package/dist/types/src/ui/components/LoomLocusInput.d.ts +0 -18
  131. package/dist/types/src/ui/components/LoomNavbar.d.ts +0 -15
  132. package/dist/types/src/ui/components/LoomPopup.d.ts +0 -32
  133. package/dist/types/src/ui/components/LoomWindowSize.d.ts +0 -14
  134. package/dist/types/src/ui/components/LoomZoomControls.d.ts +0 -10
  135. package/dist/types/src/ui/index.d.ts +0 -21
  136. package/dist/types/src/ui/themes.d.ts +0 -14
  137. package/dist/types/src/worker/nodeWorkerProvider.d.ts +0 -28
  138. package/dist/types/src/worker/taskHandler.d.ts +0 -15
  139. package/dist/types/src/worker/webWorkerProvider.d.ts +0 -51
  140. package/dist/types/src/worker/workerScript.d.ts +0 -11
  141. package/dist/types/src/workerProvider.d.ts +0 -76
  142. package/dist/types/tabix/bgzBlockLoader.d.ts +0 -60
  143. package/dist/types/tabix/bgzf.d.ts +0 -43
  144. package/dist/types/tabix/tabixIndex.d.ts +0 -85
  145. package/dist/types/tabix/tabixReader.d.ts +0 -60
  146. package/dist/types/tabix/virtualOffset.d.ts +0 -41
  147. package/dist/types/test/src/mockCanvasProvider.d.ts +0 -67
  148. package/dist/types/test/src/testBedDecode.d.ts +0 -1
  149. package/dist/types/test/src/testCanvas2SVG.d.ts +0 -7
  150. package/dist/types/test/src/testChromAlias.d.ts +0 -1
  151. package/dist/types/test/src/testCommandDispatcher.d.ts +0 -1
  152. package/dist/types/test/src/testData.d.ts +0 -7
  153. package/dist/types/test/src/testDataLifecycle.d.ts +0 -1
  154. package/dist/types/test/src/testDataSourceCacheKey.d.ts +0 -1
  155. package/dist/types/test/src/testDataSources.d.ts +0 -5
  156. package/dist/types/test/src/testDecodeUcsc.d.ts +0 -1
  157. package/dist/types/test/src/testEvents.d.ts +0 -1
  158. package/dist/types/test/src/testFeatureCache.d.ts +0 -1
  159. package/dist/types/test/src/testFeatureParser.d.ts +0 -1
  160. package/dist/types/test/src/testFormatDetection.d.ts +0 -1
  161. package/dist/types/test/src/testGffDecode.d.ts +0 -1
  162. package/dist/types/test/src/testHeadlessBrowser.d.ts +0 -1
  163. package/dist/types/test/src/testInteractionDecoder.d.ts +0 -1
  164. package/dist/types/test/src/testIntervalTree.d.ts +0 -1
  165. package/dist/types/test/src/testLocusUtils.d.ts +0 -1
  166. package/dist/types/test/src/testPack.d.ts +0 -1
  167. package/dist/types/test/src/testROI.d.ts +0 -1
  168. package/dist/types/test/src/testRemoteProtocol.d.ts +0 -1
  169. package/dist/types/test/src/testRenderTheme.d.ts +0 -1
  170. package/dist/types/test/src/testSVGExport.d.ts +0 -5
  171. package/dist/types/test/src/testSequence.d.ts +0 -1
  172. package/dist/types/test/src/testSession.d.ts +0 -1
  173. package/dist/types/test/src/testTrackSelector.d.ts +0 -1
  174. package/dist/types/test/src/testTrackSerialize.d.ts +0 -1
  175. package/dist/types/test/src/testWigSummary.d.ts +0 -1
  176. package/dist/types/test/src/testWorkerDispatch.d.ts +0 -9
  177. package/dist/types/tracks/gene/geneRenderer.d.ts +0 -17
  178. package/dist/types/tracks/gene/geneThemes.d.ts +0 -11
  179. package/dist/types/tracks/gene/geneTrackCanvas.d.ts +0 -58
  180. package/dist/types/tracks/gene/index.d.ts +0 -4
  181. package/dist/types/ui/components/IgvBrowserShell.d.ts +0 -52
  182. package/dist/types/ui/components/IgvChromosomeSelect.d.ts +0 -18
  183. package/dist/types/ui/components/IgvExportControls.d.ts +0 -13
  184. package/dist/types/ui/components/IgvLocusInput.d.ts +0 -18
  185. package/dist/types/ui/components/IgvNavbar.d.ts +0 -15
  186. package/dist/types/ui/components/IgvWindowSize.d.ts +0 -14
  187. package/dist/types/ui/components/IgvZoomControls.d.ts +0 -10
  188. package/dist/types/wigRenderer.d.ts +0 -15
  189. package/dist/types/wigSummary.d.ts +0 -31
  190. package/dist/types/wigThemes.d.ts +0 -15
  191. package/dist/types/wigTrackCanvas.d.ts +0 -46
  192. package/dist/types/worker/decodeWig.d.ts +0 -20
package/dist/types/worker/decodeWig.d.ts DELETED
@@ -1,20 +0,0 @@
1
- /**
2
- * Standalone WIG data decode functions.
3
- *
4
- * Extracted from BigWigReader's private methods so they can be used both
5
- * on the main thread (by BigWigReader) and in worker threads (by taskHandler).
6
- *
7
- * Key difference from the instance methods: chromosome ID → name resolution
8
- * uses a pre-built Map instead of the async ChromTree.getNameForId() lookup.
9
- */
10
- import type { WigFeature, WindowFunction } from '../types';
11
- /**
12
- * Decode WIG data from a binary block (full resolution).
13
- * Three WIG formats: BedGraph (type 1), Variable step (type 2), Fixed step (type 3).
14
- */
15
- export declare function decodeWigData(data: Uint8Array, littleEndian: boolean, chrIdx1: number, bpStart: number, chrIdx2: number, bpEnd: number, chromNames: Map<number, string>): WigFeature[];
16
- /**
17
- * Decode zoom-level summary data.
18
- * Each record: chromId, chromStart, chromEnd, validCount, minVal, maxVal, sumData, sumSquares.
19
- */
20
- export declare function decodeZoomData(data: Uint8Array, littleEndian: boolean, chrIdx1: number, bpStart: number, chrIdx2: number, bpEnd: number, windowFunction: WindowFunction, chromNames: Map<number, string>): WigFeature[];