@vitessce/constants-internal 3.5.6 → 3.5.8

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 (14) hide show
  1. package/dist/index.js +181 -7
  2. package/dist-tsc/constant-relationships.d.ts.map +1 -1
  3. package/dist-tsc/constant-relationships.js +41 -0
  4. package/dist-tsc/constants.d.ts +36 -0
  5. package/dist-tsc/constants.d.ts.map +1 -1
  6. package/dist-tsc/constants.js +38 -0
  7. package/dist-tsc/coordination.d.ts.map +1 -1
  8. package/dist-tsc/coordination.js +95 -0
  9. package/dist-tsc/version.json +3 -3
  10. package/package.json +1 -1
  11. package/src/constant-relationships.ts +42 -0
  12. package/src/constants.ts +43 -0
  13. package/src/coordination.ts +95 -0
  14. package/src/version.json +3 -3
package/dist/index.js CHANGED
@@ -16,9 +16,15 @@ const ViewType = {
16
16
  FEATURE_VALUE_HISTOGRAM: "featureValueHistogram",
17
17
  DOT_PLOT: "dotPlot",
18
18
  FEATURE_BAR_PLOT: "featureBarPlot",
19
+ VOLCANO_PLOT: "volcanoPlot",
20
+ OBS_SET_COMPOSITION_BAR_PLOT: "obsSetCompositionBarPlot",
21
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: "featureSetEnrichmentBarPlot",
19
22
  BIOMARKER_SELECT: "biomarkerSelect",
23
+ COMPARATIVE_HEADING: "comparativeHeading",
20
24
  LINK_CONTROLLER: "linkController",
21
- DUAL_SCATTERPLOT: "dualScatterplot"
25
+ NEUROGLANCER: "neuroglancer",
26
+ DUAL_SCATTERPLOT: "dualScatterplot",
27
+ TREEMAP: "treemap"
22
28
  };
23
29
  const DataType = {
24
30
  OBS_LABELS: "obsLabels",
@@ -34,7 +40,11 @@ const DataType = {
34
40
  OBS_POINTS: "obsPoints",
35
41
  OBS_LOCATIONS: "obsLocations",
36
42
  SAMPLE_SETS: "sampleSets",
37
- SAMPLE_EDGES: "sampleEdges"
43
+ SAMPLE_EDGES: "sampleEdges",
44
+ COMPARISON_METADATA: "comparisonMetadata",
45
+ FEATURE_STATS: "featureStats",
46
+ FEATURE_SET_STATS: "featureSetStats",
47
+ OBS_SET_STATS: "obsSetStats"
38
48
  };
39
49
  const AsyncFunctionType = {
40
50
  // String input (rather than Node input)
@@ -94,6 +104,11 @@ const FileType = {
94
104
  OBS_LABELS_ANNDATA_ZARR: "obsLabels.anndata.zarr",
95
105
  FEATURE_LABELS_ANNDATA_ZARR: "featureLabels.anndata.zarr",
96
106
  SAMPLE_EDGES_ANNDATA_ZARR: "sampleEdges.anndata.zarr",
107
+ SAMPLE_SETS_ANNDATA_ZARR: "sampleSets.anndata.zarr",
108
+ COMPARISON_METADATA_ANNDATA_ZARR: "comparisonMetadata.anndata.zarr",
109
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR: "comparativeFeatureStats.anndata.zarr",
110
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR: "comparativeFeatureSetStats.anndata.zarr",
111
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR: "comparativeObsSetStats.anndata.zarr",
97
112
  // AnnData - zipped
98
113
  OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP: "obsFeatureMatrix.anndata.zarr.zip",
99
114
  OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP: "obsFeatureColumns.anndata.zarr.zip",
@@ -106,6 +121,11 @@ const FileType = {
106
121
  OBS_LABELS_ANNDATA_ZARR_ZIP: "obsLabels.anndata.zarr.zip",
107
122
  FEATURE_LABELS_ANNDATA_ZARR_ZIP: "featureLabels.anndata.zarr.zip",
108
123
  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: "sampleEdges.anndata.zarr.zip",
124
+ SAMPLE_SETS_ANNDATA_ZARR_ZIP: "sampleSets.anndata.zarr.zip",
125
+ COMPARISON_METADATA_ANNDATA_ZARR_ZIP: "comparisonMetadata.anndata.zarr.zip",
126
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP: "comparativeFeatureStats.anndata.zarr.zip",
127
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP: "comparativeFeatureSetStats.anndata.zarr.zip",
128
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP: "comparativeObsSetStats.anndata.zarr.zip",
109
129
  // AnnData - h5ad via reference spec
110
130
  OBS_FEATURE_MATRIX_ANNDATA_H5AD: "obsFeatureMatrix.anndata.h5ad",
111
131
  OBS_FEATURE_COLUMNS_ANNDATA_H5AD: "obsFeatureColumns.anndata.h5ad",
@@ -118,6 +138,11 @@ const FileType = {
118
138
  OBS_LABELS_ANNDATA_H5AD: "obsLabels.anndata.h5ad",
119
139
  FEATURE_LABELS_ANNDATA_H5AD: "featureLabels.anndata.h5ad",
120
140
  SAMPLE_EDGES_ANNDATA_H5AD: "sampleEdges.anndata.h5ad",
141
+ SAMPLE_SETS_ANNDATA_H5AD: "sampleSets.anndata.h5ad",
142
+ COMPARISON_METADATA_ANNDATA_H5AD: "comparisonMetadata.anndata.h5ad",
143
+ COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD: "comparativeFeatureStats.anndata.h5ad",
144
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD: "comparativeFeatureSetStats.anndata.h5ad",
145
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD: "comparativeObsSetStats.anndata.h5ad",
121
146
  // SpatialData
122
147
  IMAGE_SPATIALDATA_ZARR: "image.spatialdata.zarr",
123
148
  LABELS_SPATIALDATA_ZARR: "labels.spatialdata.zarr",
@@ -309,12 +334,20 @@ const CoordinationType = {
309
334
  SAMPLE_SET_FILTER: "sampleSetFilter",
310
335
  SAMPLE_FILTER_MODE: "sampleFilterMode",
311
336
  SAMPLE_SET_COLOR: "sampleSetColor",
337
+ SAMPLE_HIGHLIGHT: "sampleHighlight",
312
338
  EMBEDDING_POINTS_VISIBLE: "embeddingPointsVisible",
313
339
  EMBEDDING_CONTOURS_VISIBLE: "embeddingContoursVisible",
314
340
  EMBEDDING_CONTOURS_FILLED: "embeddingContoursFilled",
315
341
  EMBEDDING_CONTOUR_PERCENTILES: "embeddingContourPercentiles",
316
342
  CONTOUR_COLOR_ENCODING: "contourColorEncoding",
317
- CONTOUR_COLOR: "contourColor"
343
+ CONTOUR_COLOR: "contourColor",
344
+ // For volcano plot:
345
+ FEATURE_POINT_SIGNIFICANCE_THRESHOLD: "featurePointSignificanceThreshold",
346
+ FEATURE_LABEL_SIGNIFICANCE_THRESHOLD: "featureLabelSignificanceThreshold",
347
+ FEATURE_POINT_FOLD_CHANGE_THRESHOLD: "featurePointFoldChangeThreshold",
348
+ FEATURE_LABEL_FOLD_CHANGE_THRESHOLD: "featureLabelFoldChangeThreshold",
349
+ // Treemap
350
+ HIERARCHY_LEVELS: "hierarchyLevels"
318
351
  };
319
352
  const STATUS = {
320
353
  LOADING: "loading",
@@ -340,7 +373,12 @@ const ViewHelpMapping = {
340
373
  OBS_SET_FEATURE_VALUE_DISTRIBUTION: "The observation set feature value distribution view displays a violin plot with values (e.g., expression values) per set (e.g., cell type) for the selected feature (e.g., gene).",
341
374
  FEATURE_VALUE_HISTOGRAM: "The feature value histogram displays the distribution of values (e.g., expression) for the selected feature (e.g., gene).",
342
375
  DOT_PLOT: "The dot plot displays summary information about expression of the selected features (e.g., genes) for each selected observation set (e.g., cell type).",
343
- FEATURE_BAR_PLOT: "The feature bar plot displays one bar per observation (e.g., cell) along the x-axis, where the value of a selected feature (e.g., gene) is encoded along the y-axis."
376
+ FEATURE_BAR_PLOT: "The feature bar plot displays one bar per observation (e.g., cell) along the x-axis, where the value of a selected feature (e.g., gene) is encoded along the y-axis.",
377
+ NEUROGLANCER: "The Neuroglancer view displays 3d meshes using Neuroglancer developed by Google.",
378
+ TREEMAP: "The treemap provides an overview of the current state of sample-level or cell-level selection and filtering.",
379
+ VOLCANO_PLOT: "The volcano plot displays differential expression results. Each data point represents a feature (as opposed to an observation).",
380
+ OBS_SET_COMPOSITION_BAR_PLOT: "The set composition bar plot displays the results of a compositional analysis conducted using the scCODA method (Büttner et al. 2021 Nature Communications).",
381
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: "The feature set enrichment bar plot displays the results of a hypergeometric test applied to the differential expression test results to identify enriched pathway gene sets."
344
382
  };
345
383
  const FILE_TYPE_DATA_TYPE_MAPPING = {
346
384
  // For new file types
@@ -368,6 +406,11 @@ const FILE_TYPE_DATA_TYPE_MAPPING = {
368
406
  [FileType.OBS_LABELS_ANNDATA_ZARR]: DataType.OBS_LABELS,
369
407
  [FileType.FEATURE_LABELS_ANNDATA_ZARR]: DataType.FEATURE_LABELS,
370
408
  [FileType.SAMPLE_EDGES_ANNDATA_ZARR]: DataType.SAMPLE_EDGES,
409
+ [FileType.SAMPLE_SETS_ANNDATA_ZARR]: DataType.SAMPLE_SETS,
410
+ [FileType.COMPARISON_METADATA_ANNDATA_ZARR]: DataType.COMPARISON_METADATA,
411
+ [FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR]: DataType.FEATURE_STATS,
412
+ [FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR]: DataType.FEATURE_SET_STATS,
413
+ [FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR]: DataType.OBS_SET_STATS,
371
414
  [FileType.IMAGE_OME_TIFF]: DataType.IMAGE,
372
415
  [FileType.OBS_SEGMENTATIONS_OME_TIFF]: DataType.OBS_SEGMENTATIONS,
373
416
  [FileType.OBS_FEATURE_MATRIX_MUDATA_ZARR]: DataType.OBS_FEATURE_MATRIX,
@@ -448,6 +491,22 @@ const DATA_TYPE_COORDINATION_VALUE_USAGE = {
448
491
  [DataType.SAMPLE_EDGES]: [
449
492
  CoordinationType.OBS_TYPE,
450
493
  CoordinationType.SAMPLE_TYPE
494
+ ],
495
+ [DataType.COMPARISON_METADATA]: [
496
+ CoordinationType.OBS_TYPE,
497
+ CoordinationType.SAMPLE_TYPE
498
+ ],
499
+ [DataType.FEATURE_STATS]: [
500
+ CoordinationType.FEATURE_TYPE
501
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
502
+ ],
503
+ [DataType.FEATURE_SET_STATS]: [
504
+ CoordinationType.FEATURE_TYPE
505
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
506
+ ],
507
+ [DataType.OBS_SET_STATS]: [
508
+ CoordinationType.OBS_TYPE
509
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
451
510
  ]
452
511
  };
453
512
  const ALT_ZARR_STORE_TYPES = {
@@ -496,6 +555,26 @@ const ALT_ZARR_STORE_TYPES = {
496
555
  zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP,
497
556
  h5ad: FileType.SAMPLE_EDGES_ANNDATA_H5AD
498
557
  },
558
+ [FileType.SAMPLE_SETS_ANNDATA_ZARR]: {
559
+ zip: FileType.SAMPLE_SETS_ANNDATA_ZARR_ZIP,
560
+ h5ad: FileType.SAMPLE_SETS_ANNDATA_H5AD
561
+ },
562
+ [FileType.COMPARISON_METADATA_ANNDATA_ZARR]: {
563
+ zip: FileType.COMPARISON_METADATA_ANNDATA_ZARR_ZIP,
564
+ h5ad: FileType.COMPARISON_METADATA_ANNDATA_H5AD
565
+ },
566
+ [FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR]: {
567
+ zip: FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP,
568
+ h5ad: FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD
569
+ },
570
+ [FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR]: {
571
+ zip: FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP,
572
+ h5ad: FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD
573
+ },
574
+ [FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR]: {
575
+ zip: FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP,
576
+ h5ad: FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD
577
+ },
499
578
  // For OME-Zarr:
500
579
  [FileType.IMAGE_OME_ZARR]: {
501
580
  zip: FileType.IMAGE_OME_ZARR_ZIP
@@ -520,6 +599,9 @@ const AUTO_INDEPENDENT_COORDINATION_TYPES = [
520
599
  CoordinationType.EMBEDDING_OBS_OPACITY
521
600
  ];
522
601
  const COMPONENT_COORDINATION_TYPES = {
602
+ [ViewType.NEUROGLANCER]: [
603
+ CoordinationType.DATASET
604
+ ],
523
605
  [ViewType.SCATTERPLOT]: [
524
606
  CoordinationType.DATASET,
525
607
  CoordinationType.OBS_TYPE,
@@ -989,21 +1071,113 @@ const COMPONENT_COORDINATION_TYPES = {
989
1071
  CoordinationType.OBS_COLOR_ENCODING,
990
1072
  CoordinationType.ADDITIONAL_OBS_SETS
991
1073
  ],
1074
+ [ViewType.VOLCANO_PLOT]: [
1075
+ CoordinationType.DATASET,
1076
+ CoordinationType.OBS_TYPE,
1077
+ CoordinationType.FEATURE_TYPE,
1078
+ CoordinationType.SAMPLE_TYPE,
1079
+ // For selection of case-control sets of samples:
1080
+ CoordinationType.SAMPLE_SET_SELECTION,
1081
+ // For selection of one-vs-others sets of observations:
1082
+ CoordinationType.OBS_SET_SELECTION,
1083
+ // TODO: CoordinationType.FEATURE_SET_SELECTION,
1084
+ // TODO: CoordinationType.FEATURE_SET_HIGHLIGHT,
1085
+ // TODO: CoordinationType.FEATURE_SET_COLOR,
1086
+ CoordinationType.FEATURE_HIGHLIGHT,
1087
+ CoordinationType.FEATURE_SELECTION,
1088
+ CoordinationType.FEATURE_VALUE_COLORMAP,
1089
+ CoordinationType.FEATURE_VALUE_COLORMAP_RANGE,
1090
+ // TODO: CoordinationType.FEATURE_COLOR_ENCODING,
1091
+ // TODO: CoordinationType.ADDITIONAL_FEATURE_SETS,
1092
+ CoordinationType.TOOLTIPS_VISIBLE,
1093
+ CoordinationType.ADDITIONAL_OBS_SETS,
1094
+ CoordinationType.OBS_SET_COLOR,
1095
+ CoordinationType.SAMPLE_SET_COLOR,
1096
+ CoordinationType.FEATURE_POINT_SIGNIFICANCE_THRESHOLD,
1097
+ CoordinationType.FEATURE_LABEL_SIGNIFICANCE_THRESHOLD,
1098
+ CoordinationType.FEATURE_POINT_FOLD_CHANGE_THRESHOLD,
1099
+ CoordinationType.FEATURE_LABEL_FOLD_CHANGE_THRESHOLD
1100
+ ],
1101
+ [ViewType.OBS_SET_COMPOSITION_BAR_PLOT]: [
1102
+ CoordinationType.DATASET,
1103
+ CoordinationType.OBS_TYPE,
1104
+ CoordinationType.SAMPLE_TYPE,
1105
+ // For selection of case-control sets of samples:
1106
+ CoordinationType.SAMPLE_SET_SELECTION,
1107
+ // For selection of one-vs-others sets of observations:
1108
+ CoordinationType.OBS_SET_SELECTION,
1109
+ CoordinationType.ADDITIONAL_OBS_SETS,
1110
+ CoordinationType.OBS_SET_COLOR,
1111
+ CoordinationType.SAMPLE_SET_COLOR
1112
+ ],
1113
+ [ViewType.FEATURE_SET_ENRICHMENT_BAR_PLOT]: [
1114
+ CoordinationType.DATASET,
1115
+ CoordinationType.OBS_TYPE,
1116
+ CoordinationType.FEATURE_TYPE,
1117
+ CoordinationType.SAMPLE_TYPE,
1118
+ // For selection of case-control sets of samples:
1119
+ CoordinationType.SAMPLE_SET_SELECTION,
1120
+ // For selection of one-vs-others sets of observations:
1121
+ CoordinationType.OBS_SET_SELECTION,
1122
+ CoordinationType.ADDITIONAL_OBS_SETS,
1123
+ CoordinationType.OBS_SET_COLOR,
1124
+ CoordinationType.SAMPLE_SET_COLOR,
1125
+ CoordinationType.FEATURE_SELECTION
1126
+ ],
992
1127
  [ViewType.LINK_CONTROLLER]: [],
993
1128
  [ViewType.BIOMARKER_SELECT]: [
1129
+ CoordinationType.DATASET,
1130
+ CoordinationType.OBS_TYPE,
1131
+ CoordinationType.SAMPLE_TYPE,
994
1132
  CoordinationType.FEATURE_SELECTION,
995
1133
  CoordinationType.SAMPLE_SET_SELECTION,
996
1134
  CoordinationType.SAMPLE_SET_FILTER,
997
1135
  CoordinationType.OBS_SET_SELECTION,
998
1136
  CoordinationType.OBS_SET_FILTER
999
1137
  // TODO: create coordination types for internal state of the biomarker selection view?
1138
+ ],
1139
+ [ViewType.COMPARATIVE_HEADING]: [
1140
+ CoordinationType.DATASET,
1141
+ CoordinationType.OBS_TYPE,
1142
+ CoordinationType.SAMPLE_TYPE,
1143
+ CoordinationType.FEATURE_SELECTION,
1144
+ CoordinationType.SAMPLE_SET_SELECTION,
1145
+ CoordinationType.SAMPLE_SET_FILTER,
1146
+ CoordinationType.OBS_SET_SELECTION,
1147
+ CoordinationType.OBS_SET_FILTER
1148
+ ],
1149
+ [ViewType.TREEMAP]: [
1150
+ CoordinationType.DATASET,
1151
+ CoordinationType.OBS_TYPE,
1152
+ CoordinationType.FEATURE_TYPE,
1153
+ CoordinationType.FEATURE_VALUE_TYPE,
1154
+ CoordinationType.OBS_FILTER,
1155
+ CoordinationType.OBS_HIGHLIGHT,
1156
+ CoordinationType.OBS_SET_SELECTION,
1157
+ CoordinationType.OBS_SET_FILTER,
1158
+ CoordinationType.OBS_SELECTION,
1159
+ CoordinationType.OBS_SELECTION_MODE,
1160
+ CoordinationType.OBS_SET_HIGHLIGHT,
1161
+ CoordinationType.OBS_SET_COLOR,
1162
+ CoordinationType.OBS_COLOR_ENCODING,
1163
+ CoordinationType.ADDITIONAL_OBS_SETS,
1164
+ CoordinationType.SAMPLE_TYPE,
1165
+ CoordinationType.SAMPLE_SET_SELECTION,
1166
+ CoordinationType.SAMPLE_SET_FILTER,
1167
+ CoordinationType.SAMPLE_SET_COLOR,
1168
+ CoordinationType.SAMPLE_SELECTION,
1169
+ CoordinationType.SAMPLE_SELECTION_MODE,
1170
+ CoordinationType.SAMPLE_FILTER,
1171
+ CoordinationType.SAMPLE_FILTER_MODE,
1172
+ CoordinationType.SAMPLE_HIGHLIGHT,
1173
+ CoordinationType.HIERARCHY_LEVELS
1000
1174
  ]
1001
1175
  };
1002
1176
  const note = "This file is autogenerated by .changeset/post-changelog.mjs.";
1003
- const version = "3.5.6";
1004
- const date = "2025-01-29";
1177
+ const version = "3.5.8";
1178
+ const date = "2025-03-06";
1005
1179
  const branch = "changeset-release/main";
1006
- const hash = "c8eedf07";
1180
+ const hash = "9066c55a";
1007
1181
  const version$1 = {
1008
1182
  note,
1009
1183
  version,
package/dist-tsc/constant-relationships.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"constant-relationships.d.ts","sourceRoot":"","sources":["../src/constant-relationships.ts"],"names":[],"mappings":"AAEA;;;;GAIG;AACH,eAAO,MAAM,2BAA2B;;CA+DvC,CAAC;AAEF;;;;GAIG;AACH,eAAO,MAAM,kCAAkC;;CA6C9C,CAAC;AAKF,eAAO,MAAM,oBAAoB;;;;;;;;CAqDhC,CAAC"}
1
+ {"version":3,"file":"constant-relationships.d.ts","sourceRoot":"","sources":["../src/constant-relationships.ts"],"names":[],"mappings":"AAEA;;;;GAIG;AACH,eAAO,MAAM,2BAA2B;;CAoEvC,CAAC;AAEF;;;;GAIG;AACH,eAAO,MAAM,kCAAkC;;CA6D9C,CAAC;AAKF,eAAO,MAAM,oBAAoB;;;;;;;;CA0EhC,CAAC"}
package/dist-tsc/constant-relationships.js CHANGED
@@ -30,6 +30,11 @@ export const FILE_TYPE_DATA_TYPE_MAPPING = {
30
30
  [FileType.OBS_LABELS_ANNDATA_ZARR]: DataType.OBS_LABELS,
31
31
  [FileType.FEATURE_LABELS_ANNDATA_ZARR]: DataType.FEATURE_LABELS,
32
32
  [FileType.SAMPLE_EDGES_ANNDATA_ZARR]: DataType.SAMPLE_EDGES,
33
+ [FileType.SAMPLE_SETS_ANNDATA_ZARR]: DataType.SAMPLE_SETS,
34
+ [FileType.COMPARISON_METADATA_ANNDATA_ZARR]: DataType.COMPARISON_METADATA,
35
+ [FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR]: DataType.FEATURE_STATS,
36
+ [FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR]: DataType.FEATURE_SET_STATS,
37
+ [FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR]: DataType.OBS_SET_STATS,
33
38
  [FileType.IMAGE_OME_TIFF]: DataType.IMAGE,
34
39
  [FileType.OBS_SEGMENTATIONS_OME_TIFF]: DataType.OBS_SEGMENTATIONS,
35
40
  [FileType.OBS_FEATURE_MATRIX_MUDATA_ZARR]: DataType.OBS_FEATURE_MATRIX,
@@ -116,6 +121,22 @@ export const DATA_TYPE_COORDINATION_VALUE_USAGE = {
116
121
  CoordinationType.OBS_TYPE,
117
122
  CoordinationType.SAMPLE_TYPE,
118
123
  ],
124
+ [DataType.COMPARISON_METADATA]: [
125
+ CoordinationType.OBS_TYPE,
126
+ CoordinationType.SAMPLE_TYPE,
127
+ ],
128
+ [DataType.FEATURE_STATS]: [
129
+ CoordinationType.FEATURE_TYPE,
130
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
131
+ ],
132
+ [DataType.FEATURE_SET_STATS]: [
133
+ CoordinationType.FEATURE_TYPE,
134
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
135
+ ],
136
+ [DataType.OBS_SET_STATS]: [
137
+ CoordinationType.OBS_TYPE,
138
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
139
+ ],
119
140
  };
120
141
  // For Zarr-based file types, we keep a mapping to file types
121
142
  // corresponding to alternative store implementations,
@@ -166,6 +187,26 @@ export const ALT_ZARR_STORE_TYPES = {
166
187
  zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP,
167
188
  h5ad: FileType.SAMPLE_EDGES_ANNDATA_H5AD,
168
189
  },
190
+ [FileType.SAMPLE_SETS_ANNDATA_ZARR]: {
191
+ zip: FileType.SAMPLE_SETS_ANNDATA_ZARR_ZIP,
192
+ h5ad: FileType.SAMPLE_SETS_ANNDATA_H5AD,
193
+ },
194
+ [FileType.COMPARISON_METADATA_ANNDATA_ZARR]: {
195
+ zip: FileType.COMPARISON_METADATA_ANNDATA_ZARR_ZIP,
196
+ h5ad: FileType.COMPARISON_METADATA_ANNDATA_H5AD,
197
+ },
198
+ [FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR]: {
199
+ zip: FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP,
200
+ h5ad: FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD,
201
+ },
202
+ [FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR]: {
203
+ zip: FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP,
204
+ h5ad: FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD,
205
+ },
206
+ [FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR]: {
207
+ zip: FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP,
208
+ h5ad: FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD,
209
+ },
169
210
  // For OME-Zarr:
170
211
  [FileType.IMAGE_OME_ZARR]: {
171
212
  zip: FileType.IMAGE_OME_ZARR_ZIP,
package/dist-tsc/constants.d.ts CHANGED
@@ -21,9 +21,15 @@ export declare const ViewType: {
21
21
  FEATURE_VALUE_HISTOGRAM: string;
22
22
  DOT_PLOT: string;
23
23
  FEATURE_BAR_PLOT: string;
24
+ VOLCANO_PLOT: string;
25
+ OBS_SET_COMPOSITION_BAR_PLOT: string;
26
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: string;
24
27
  BIOMARKER_SELECT: string;
28
+ COMPARATIVE_HEADING: string;
25
29
  LINK_CONTROLLER: string;
30
+ NEUROGLANCER: string;
26
31
  DUAL_SCATTERPLOT: string;
32
+ TREEMAP: string;
27
33
  };
28
34
  export declare const DataType: {
29
35
  OBS_LABELS: string;
@@ -40,6 +46,10 @@ export declare const DataType: {
40
46
  OBS_LOCATIONS: string;
41
47
  SAMPLE_SETS: string;
42
48
  SAMPLE_EDGES: string;
49
+ COMPARISON_METADATA: string;
50
+ FEATURE_STATS: string;
51
+ FEATURE_SET_STATS: string;
52
+ OBS_SET_STATS: string;
43
53
  };
44
54
  export declare const AsyncFunctionType: {
45
55
  AUTOCOMPLETE_FEATURE: string;
@@ -83,6 +93,11 @@ export declare const FileType: {
83
93
  OBS_LABELS_ANNDATA_ZARR: string;
84
94
  FEATURE_LABELS_ANNDATA_ZARR: string;
85
95
  SAMPLE_EDGES_ANNDATA_ZARR: string;
96
+ SAMPLE_SETS_ANNDATA_ZARR: string;
97
+ COMPARISON_METADATA_ANNDATA_ZARR: string;
98
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR: string;
99
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR: string;
100
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR: string;
86
101
  OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP: string;
87
102
  OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP: string;
88
103
  OBS_SETS_ANNDATA_ZARR_ZIP: string;
@@ -94,6 +109,11 @@ export declare const FileType: {
94
109
  OBS_LABELS_ANNDATA_ZARR_ZIP: string;
95
110
  FEATURE_LABELS_ANNDATA_ZARR_ZIP: string;
96
111
  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: string;
112
+ SAMPLE_SETS_ANNDATA_ZARR_ZIP: string;
113
+ COMPARISON_METADATA_ANNDATA_ZARR_ZIP: string;
114
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP: string;
115
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP: string;
116
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP: string;
97
117
  OBS_FEATURE_MATRIX_ANNDATA_H5AD: string;
98
118
  OBS_FEATURE_COLUMNS_ANNDATA_H5AD: string;
99
119
  OBS_SETS_ANNDATA_H5AD: string;
@@ -105,6 +125,11 @@ export declare const FileType: {
105
125
  OBS_LABELS_ANNDATA_H5AD: string;
106
126
  FEATURE_LABELS_ANNDATA_H5AD: string;
107
127
  SAMPLE_EDGES_ANNDATA_H5AD: string;
128
+ SAMPLE_SETS_ANNDATA_H5AD: string;
129
+ COMPARISON_METADATA_ANNDATA_H5AD: string;
130
+ COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD: string;
131
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD: string;
132
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD: string;
108
133
  IMAGE_SPATIALDATA_ZARR: string;
109
134
  LABELS_SPATIALDATA_ZARR: string;
110
135
  SHAPES_SPATIALDATA_ZARR: string;
@@ -272,12 +297,18 @@ export declare const CoordinationType: {
272
297
  SAMPLE_SET_FILTER: string;
273
298
  SAMPLE_FILTER_MODE: string;
274
299
  SAMPLE_SET_COLOR: string;
300
+ SAMPLE_HIGHLIGHT: string;
275
301
  EMBEDDING_POINTS_VISIBLE: string;
276
302
  EMBEDDING_CONTOURS_VISIBLE: string;
277
303
  EMBEDDING_CONTOURS_FILLED: string;
278
304
  EMBEDDING_CONTOUR_PERCENTILES: string;
279
305
  CONTOUR_COLOR_ENCODING: string;
280
306
  CONTOUR_COLOR: string;
307
+ FEATURE_POINT_SIGNIFICANCE_THRESHOLD: string;
308
+ FEATURE_LABEL_SIGNIFICANCE_THRESHOLD: string;
309
+ FEATURE_POINT_FOLD_CHANGE_THRESHOLD: string;
310
+ FEATURE_LABEL_FOLD_CHANGE_THRESHOLD: string;
311
+ HIERARCHY_LEVELS: string;
281
312
  };
282
313
  export declare const STATUS: {
283
314
  LOADING: string;
@@ -308,5 +339,10 @@ export declare const ViewHelpMapping: {
308
339
  FEATURE_VALUE_HISTOGRAM: string;
309
340
  DOT_PLOT: string;
310
341
  FEATURE_BAR_PLOT: string;
342
+ NEUROGLANCER: string;
343
+ TREEMAP: string;
344
+ VOLCANO_PLOT: string;
345
+ OBS_SET_COMPOSITION_BAR_PLOT: string;
346
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: string;
311
347
  };
312
348
  //# sourceMappingURL=constants.d.ts.map
package/dist-tsc/constants.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;CAqBpB,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;CAepB,CAAC;AAEF,eAAO,MAAM,iBAAiB;;;;;;;;;;CAc7B,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAwHpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAmI5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC;AAEF,eAAO,MAAM,eAAe;;;CAG3B,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;CAgB3B,CAAC"}
1
+ {"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;CA2BpB,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;CAmBpB,CAAC;AAEF,eAAO,MAAM,iBAAiB;;;;;;;;;;CAc7B,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CA4IpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CA2I5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC;AAEF,eAAO,MAAM,eAAe;;;CAG3B,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;;;;;;CAqB3B,CAAC"}
package/dist-tsc/constants.js CHANGED
@@ -21,9 +21,15 @@ export const ViewType = {
21
21
  FEATURE_VALUE_HISTOGRAM: 'featureValueHistogram',
22
22
  DOT_PLOT: 'dotPlot',
23
23
  FEATURE_BAR_PLOT: 'featureBarPlot',
24
+ VOLCANO_PLOT: 'volcanoPlot',
25
+ OBS_SET_COMPOSITION_BAR_PLOT: 'obsSetCompositionBarPlot',
26
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: 'featureSetEnrichmentBarPlot',
24
27
  BIOMARKER_SELECT: 'biomarkerSelect',
28
+ COMPARATIVE_HEADING: 'comparativeHeading',
25
29
  LINK_CONTROLLER: 'linkController',
30
+ NEUROGLANCER: 'neuroglancer',
26
31
  DUAL_SCATTERPLOT: 'dualScatterplot',
32
+ TREEMAP: 'treemap',
27
33
  };
28
34
  export const DataType = {
29
35
  OBS_LABELS: 'obsLabels',
@@ -40,6 +46,10 @@ export const DataType = {
40
46
  OBS_LOCATIONS: 'obsLocations',
41
47
  SAMPLE_SETS: 'sampleSets',
42
48
  SAMPLE_EDGES: 'sampleEdges',
49
+ COMPARISON_METADATA: 'comparisonMetadata',
50
+ FEATURE_STATS: 'featureStats',
51
+ FEATURE_SET_STATS: 'featureSetStats',
52
+ OBS_SET_STATS: 'obsSetStats',
43
53
  };
44
54
  export const AsyncFunctionType = {
45
55
  // String input (rather than Node input)
@@ -90,6 +100,11 @@ export const FileType = {
90
100
  OBS_LABELS_ANNDATA_ZARR: 'obsLabels.anndata.zarr',
91
101
  FEATURE_LABELS_ANNDATA_ZARR: 'featureLabels.anndata.zarr',
92
102
  SAMPLE_EDGES_ANNDATA_ZARR: 'sampleEdges.anndata.zarr',
103
+ SAMPLE_SETS_ANNDATA_ZARR: 'sampleSets.anndata.zarr',
104
+ COMPARISON_METADATA_ANNDATA_ZARR: 'comparisonMetadata.anndata.zarr',
105
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR: 'comparativeFeatureStats.anndata.zarr',
106
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR: 'comparativeFeatureSetStats.anndata.zarr',
107
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR: 'comparativeObsSetStats.anndata.zarr',
93
108
  // AnnData - zipped
94
109
  OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP: 'obsFeatureMatrix.anndata.zarr.zip',
95
110
  OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP: 'obsFeatureColumns.anndata.zarr.zip',
@@ -102,6 +117,11 @@ export const FileType = {
102
117
  OBS_LABELS_ANNDATA_ZARR_ZIP: 'obsLabels.anndata.zarr.zip',
103
118
  FEATURE_LABELS_ANNDATA_ZARR_ZIP: 'featureLabels.anndata.zarr.zip',
104
119
  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: 'sampleEdges.anndata.zarr.zip',
120
+ SAMPLE_SETS_ANNDATA_ZARR_ZIP: 'sampleSets.anndata.zarr.zip',
121
+ COMPARISON_METADATA_ANNDATA_ZARR_ZIP: 'comparisonMetadata.anndata.zarr.zip',
122
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP: 'comparativeFeatureStats.anndata.zarr.zip',
123
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP: 'comparativeFeatureSetStats.anndata.zarr.zip',
124
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP: 'comparativeObsSetStats.anndata.zarr.zip',
105
125
  // AnnData - h5ad via reference spec
106
126
  OBS_FEATURE_MATRIX_ANNDATA_H5AD: 'obsFeatureMatrix.anndata.h5ad',
107
127
  OBS_FEATURE_COLUMNS_ANNDATA_H5AD: 'obsFeatureColumns.anndata.h5ad',
@@ -114,6 +134,11 @@ export const FileType = {
114
134
  OBS_LABELS_ANNDATA_H5AD: 'obsLabels.anndata.h5ad',
115
135
  FEATURE_LABELS_ANNDATA_H5AD: 'featureLabels.anndata.h5ad',
116
136
  SAMPLE_EDGES_ANNDATA_H5AD: 'sampleEdges.anndata.h5ad',
137
+ SAMPLE_SETS_ANNDATA_H5AD: 'sampleSets.anndata.h5ad',
138
+ COMPARISON_METADATA_ANNDATA_H5AD: 'comparisonMetadata.anndata.h5ad',
139
+ COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD: 'comparativeFeatureStats.anndata.h5ad',
140
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD: 'comparativeFeatureSetStats.anndata.h5ad',
141
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD: 'comparativeObsSetStats.anndata.h5ad',
117
142
  // SpatialData
118
143
  IMAGE_SPATIALDATA_ZARR: 'image.spatialdata.zarr',
119
144
  LABELS_SPATIALDATA_ZARR: 'labels.spatialdata.zarr',
@@ -304,12 +329,20 @@ export const CoordinationType = {
304
329
  SAMPLE_SET_FILTER: 'sampleSetFilter',
305
330
  SAMPLE_FILTER_MODE: 'sampleFilterMode',
306
331
  SAMPLE_SET_COLOR: 'sampleSetColor',
332
+ SAMPLE_HIGHLIGHT: 'sampleHighlight',
307
333
  EMBEDDING_POINTS_VISIBLE: 'embeddingPointsVisible',
308
334
  EMBEDDING_CONTOURS_VISIBLE: 'embeddingContoursVisible',
309
335
  EMBEDDING_CONTOURS_FILLED: 'embeddingContoursFilled',
310
336
  EMBEDDING_CONTOUR_PERCENTILES: 'embeddingContourPercentiles',
311
337
  CONTOUR_COLOR_ENCODING: 'contourColorEncoding',
312
338
  CONTOUR_COLOR: 'contourColor',
339
+ // For volcano plot:
340
+ FEATURE_POINT_SIGNIFICANCE_THRESHOLD: 'featurePointSignificanceThreshold',
341
+ FEATURE_LABEL_SIGNIFICANCE_THRESHOLD: 'featureLabelSignificanceThreshold',
342
+ FEATURE_POINT_FOLD_CHANGE_THRESHOLD: 'featurePointFoldChangeThreshold',
343
+ FEATURE_LABEL_FOLD_CHANGE_THRESHOLD: 'featureLabelFoldChangeThreshold',
344
+ // Treemap
345
+ HIERARCHY_LEVELS: 'hierarchyLevels',
313
346
  };
314
347
  export const STATUS = {
315
348
  LOADING: 'loading',
@@ -340,4 +373,9 @@ export const ViewHelpMapping = {
340
373
  FEATURE_VALUE_HISTOGRAM: 'The feature value histogram displays the distribution of values (e.g., expression) for the selected feature (e.g., gene).',
341
374
  DOT_PLOT: 'The dot plot displays summary information about expression of the selected features (e.g., genes) for each selected observation set (e.g., cell type).',
342
375
  FEATURE_BAR_PLOT: 'The feature bar plot displays one bar per observation (e.g., cell) along the x-axis, where the value of a selected feature (e.g., gene) is encoded along the y-axis.',
376
+ NEUROGLANCER: 'The Neuroglancer view displays 3d meshes using Neuroglancer developed by Google.',
377
+ TREEMAP: 'The treemap provides an overview of the current state of sample-level or cell-level selection and filtering.',
378
+ VOLCANO_PLOT: 'The volcano plot displays differential expression results. Each data point represents a feature (as opposed to an observation).',
379
+ OBS_SET_COMPOSITION_BAR_PLOT: 'The set composition bar plot displays the results of a compositional analysis conducted using the scCODA method (Büttner et al. 2021 Nature Communications).',
380
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: 'The feature set enrichment bar plot displays the results of a hypergeometric test applied to the differential expression test results to identify enriched pathway gene sets.',
343
381
  };
package/dist-tsc/coordination.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"coordination.d.ts","sourceRoot":"","sources":["../src/coordination.ts"],"names":[],"mappings":"AASA,eAAO,MAAM,mCAAmC,UAc/C,CAAC;AAEF;;;;;;;KAOK;AACL,eAAO,MAAM,4BAA4B;;;CA+dxC,CAAC"}
1
+ {"version":3,"file":"coordination.d.ts","sourceRoot":"","sources":["../src/coordination.ts"],"names":[],"mappings":"AASA,eAAO,MAAM,mCAAmC,UAc/C,CAAC;AAEF;;;;;;;KAOK;AACL,eAAO,MAAM,4BAA4B;;;CA8jBxC,CAAC"}
package/dist-tsc/coordination.js CHANGED
@@ -30,6 +30,9 @@ export const AUTO_INDEPENDENT_COORDINATION_TYPES = [
30
30
  * Keys here are the component registry keys.
31
31
  */
32
32
  export const COMPONENT_COORDINATION_TYPES = {
33
+ [ViewType.NEUROGLANCER]: [
34
+ CoordinationType.DATASET,
35
+ ],
33
36
  [ViewType.SCATTERPLOT]: [
34
37
  CoordinationType.DATASET,
35
38
  CoordinationType.OBS_TYPE,
@@ -499,8 +502,64 @@ export const COMPONENT_COORDINATION_TYPES = {
499
502
  CoordinationType.OBS_COLOR_ENCODING,
500
503
  CoordinationType.ADDITIONAL_OBS_SETS,
501
504
  ],
505
+ [ViewType.VOLCANO_PLOT]: [
506
+ CoordinationType.DATASET,
507
+ CoordinationType.OBS_TYPE,
508
+ CoordinationType.FEATURE_TYPE,
509
+ CoordinationType.SAMPLE_TYPE,
510
+ // For selection of case-control sets of samples:
511
+ CoordinationType.SAMPLE_SET_SELECTION,
512
+ // For selection of one-vs-others sets of observations:
513
+ CoordinationType.OBS_SET_SELECTION,
514
+ // TODO: CoordinationType.FEATURE_SET_SELECTION,
515
+ // TODO: CoordinationType.FEATURE_SET_HIGHLIGHT,
516
+ // TODO: CoordinationType.FEATURE_SET_COLOR,
517
+ CoordinationType.FEATURE_HIGHLIGHT,
518
+ CoordinationType.FEATURE_SELECTION,
519
+ CoordinationType.FEATURE_VALUE_COLORMAP,
520
+ CoordinationType.FEATURE_VALUE_COLORMAP_RANGE,
521
+ // TODO: CoordinationType.FEATURE_COLOR_ENCODING,
522
+ // TODO: CoordinationType.ADDITIONAL_FEATURE_SETS,
523
+ CoordinationType.TOOLTIPS_VISIBLE,
524
+ CoordinationType.ADDITIONAL_OBS_SETS,
525
+ CoordinationType.OBS_SET_COLOR,
526
+ CoordinationType.SAMPLE_SET_COLOR,
527
+ CoordinationType.FEATURE_POINT_SIGNIFICANCE_THRESHOLD,
528
+ CoordinationType.FEATURE_LABEL_SIGNIFICANCE_THRESHOLD,
529
+ CoordinationType.FEATURE_POINT_FOLD_CHANGE_THRESHOLD,
530
+ CoordinationType.FEATURE_LABEL_FOLD_CHANGE_THRESHOLD,
531
+ ],
532
+ [ViewType.OBS_SET_COMPOSITION_BAR_PLOT]: [
533
+ CoordinationType.DATASET,
534
+ CoordinationType.OBS_TYPE,
535
+ CoordinationType.SAMPLE_TYPE,
536
+ // For selection of case-control sets of samples:
537
+ CoordinationType.SAMPLE_SET_SELECTION,
538
+ // For selection of one-vs-others sets of observations:
539
+ CoordinationType.OBS_SET_SELECTION,
540
+ CoordinationType.ADDITIONAL_OBS_SETS,
541
+ CoordinationType.OBS_SET_COLOR,
542
+ CoordinationType.SAMPLE_SET_COLOR,
543
+ ],
544
+ [ViewType.FEATURE_SET_ENRICHMENT_BAR_PLOT]: [
545
+ CoordinationType.DATASET,
546
+ CoordinationType.OBS_TYPE,
547
+ CoordinationType.FEATURE_TYPE,
548
+ CoordinationType.SAMPLE_TYPE,
549
+ // For selection of case-control sets of samples:
550
+ CoordinationType.SAMPLE_SET_SELECTION,
551
+ // For selection of one-vs-others sets of observations:
552
+ CoordinationType.OBS_SET_SELECTION,
553
+ CoordinationType.ADDITIONAL_OBS_SETS,
554
+ CoordinationType.OBS_SET_COLOR,
555
+ CoordinationType.SAMPLE_SET_COLOR,
556
+ CoordinationType.FEATURE_SELECTION,
557
+ ],
502
558
  [ViewType.LINK_CONTROLLER]: [],
503
559
  [ViewType.BIOMARKER_SELECT]: [
560
+ CoordinationType.DATASET,
561
+ CoordinationType.OBS_TYPE,
562
+ CoordinationType.SAMPLE_TYPE,
504
563
  CoordinationType.FEATURE_SELECTION,
505
564
  CoordinationType.SAMPLE_SET_SELECTION,
506
565
  CoordinationType.SAMPLE_SET_FILTER,
@@ -508,4 +567,40 @@ export const COMPONENT_COORDINATION_TYPES = {
508
567
  CoordinationType.OBS_SET_FILTER,
509
568
  // TODO: create coordination types for internal state of the biomarker selection view?
510
569
  ],
570
+ [ViewType.COMPARATIVE_HEADING]: [
571
+ CoordinationType.DATASET,
572
+ CoordinationType.OBS_TYPE,
573
+ CoordinationType.SAMPLE_TYPE,
574
+ CoordinationType.FEATURE_SELECTION,
575
+ CoordinationType.SAMPLE_SET_SELECTION,
576
+ CoordinationType.SAMPLE_SET_FILTER,
577
+ CoordinationType.OBS_SET_SELECTION,
578
+ CoordinationType.OBS_SET_FILTER,
579
+ ],
580
+ [ViewType.TREEMAP]: [
581
+ CoordinationType.DATASET,
582
+ CoordinationType.OBS_TYPE,
583
+ CoordinationType.FEATURE_TYPE,
584
+ CoordinationType.FEATURE_VALUE_TYPE,
585
+ CoordinationType.OBS_FILTER,
586
+ CoordinationType.OBS_HIGHLIGHT,
587
+ CoordinationType.OBS_SET_SELECTION,
588
+ CoordinationType.OBS_SET_FILTER,
589
+ CoordinationType.OBS_SELECTION,
590
+ CoordinationType.OBS_SELECTION_MODE,
591
+ CoordinationType.OBS_SET_HIGHLIGHT,
592
+ CoordinationType.OBS_SET_COLOR,
593
+ CoordinationType.OBS_COLOR_ENCODING,
594
+ CoordinationType.ADDITIONAL_OBS_SETS,
595
+ CoordinationType.SAMPLE_TYPE,
596
+ CoordinationType.SAMPLE_SET_SELECTION,
597
+ CoordinationType.SAMPLE_SET_FILTER,
598
+ CoordinationType.SAMPLE_SET_COLOR,
599
+ CoordinationType.SAMPLE_SELECTION,
600
+ CoordinationType.SAMPLE_SELECTION_MODE,
601
+ CoordinationType.SAMPLE_FILTER,
602
+ CoordinationType.SAMPLE_FILTER_MODE,
603
+ CoordinationType.SAMPLE_HIGHLIGHT,
604
+ CoordinationType.HIERARCHY_LEVELS,
605
+ ],
511
606
  };
package/dist-tsc/version.json CHANGED
@@ -1,7 +1,7 @@
1
1
  {
2
2
  "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
3
- "version": "3.5.6",
4
- "date": "2025-01-29",
3
+ "version": "3.5.8",
4
+ "date": "2025-03-06",
5
5
  "branch": "changeset-release/main",
6
- "hash": "c8eedf07"
6
+ "hash": "9066c55a"
7
7
  }
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@vitessce/constants-internal",
3
- "version": "3.5.6",
3
+ "version": "3.5.8",
4
4
  "author": "HIDIVE Lab at HMS",
5
5
  "homepage": "http://vitessce.io",
6
6
  "repository": {
package/src/constant-relationships.ts CHANGED
@@ -31,6 +31,11 @@ export const FILE_TYPE_DATA_TYPE_MAPPING = {
31
31
  [FileType.OBS_LABELS_ANNDATA_ZARR]: DataType.OBS_LABELS,
32
32
  [FileType.FEATURE_LABELS_ANNDATA_ZARR]: DataType.FEATURE_LABELS,
33
33
  [FileType.SAMPLE_EDGES_ANNDATA_ZARR]: DataType.SAMPLE_EDGES,
34
+ [FileType.SAMPLE_SETS_ANNDATA_ZARR]: DataType.SAMPLE_SETS,
35
+ [FileType.COMPARISON_METADATA_ANNDATA_ZARR]: DataType.COMPARISON_METADATA,
36
+ [FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR]: DataType.FEATURE_STATS,
37
+ [FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR]: DataType.FEATURE_SET_STATS,
38
+ [FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR]: DataType.OBS_SET_STATS,
34
39
  [FileType.IMAGE_OME_TIFF]: DataType.IMAGE,
35
40
  [FileType.OBS_SEGMENTATIONS_OME_TIFF]: DataType.OBS_SEGMENTATIONS,
36
41
  [FileType.OBS_FEATURE_MATRIX_MUDATA_ZARR]: DataType.OBS_FEATURE_MATRIX,
@@ -120,6 +125,22 @@ export const DATA_TYPE_COORDINATION_VALUE_USAGE = {
120
125
  CoordinationType.OBS_TYPE,
121
126
  CoordinationType.SAMPLE_TYPE,
122
127
  ],
128
+ [DataType.COMPARISON_METADATA]: [
129
+ CoordinationType.OBS_TYPE,
130
+ CoordinationType.SAMPLE_TYPE,
131
+ ],
132
+ [DataType.FEATURE_STATS]: [
133
+ CoordinationType.FEATURE_TYPE,
134
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
135
+ ],
136
+ [DataType.FEATURE_SET_STATS]: [
137
+ CoordinationType.FEATURE_TYPE,
138
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
139
+ ],
140
+ [DataType.OBS_SET_STATS]: [
141
+ CoordinationType.OBS_TYPE,
142
+ // TODO: should sampleType, obsSetSelection, and/or sampleSetSelection be used here?
143
+ ],
123
144
  };
124
145
 
125
146
  // For Zarr-based file types, we keep a mapping to file types
@@ -171,6 +192,27 @@ export const ALT_ZARR_STORE_TYPES = {
171
192
  zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP,
172
193
  h5ad: FileType.SAMPLE_EDGES_ANNDATA_H5AD,
173
194
  },
195
+ [FileType.SAMPLE_SETS_ANNDATA_ZARR]: {
196
+ zip: FileType.SAMPLE_SETS_ANNDATA_ZARR_ZIP,
197
+ h5ad: FileType.SAMPLE_SETS_ANNDATA_H5AD,
198
+ },
199
+ [FileType.COMPARISON_METADATA_ANNDATA_ZARR]: {
200
+ zip: FileType.COMPARISON_METADATA_ANNDATA_ZARR_ZIP,
201
+ h5ad: FileType.COMPARISON_METADATA_ANNDATA_H5AD,
202
+ },
203
+ [FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR]: {
204
+ zip: FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP,
205
+ h5ad: FileType.COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD,
206
+ },
207
+ [FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR]: {
208
+ zip: FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP,
209
+ h5ad: FileType.COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD,
210
+ },
211
+ [FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR]: {
212
+ zip: FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP,
213
+ h5ad: FileType.COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD,
214
+ },
215
+
174
216
  // For OME-Zarr:
175
217
  [FileType.IMAGE_OME_ZARR]: {
176
218
  zip: FileType.IMAGE_OME_ZARR_ZIP,
package/src/constants.ts CHANGED
@@ -21,9 +21,15 @@ export const ViewType = {
21
21
  FEATURE_VALUE_HISTOGRAM: 'featureValueHistogram',
22
22
  DOT_PLOT: 'dotPlot',
23
23
  FEATURE_BAR_PLOT: 'featureBarPlot',
24
+ VOLCANO_PLOT: 'volcanoPlot',
25
+ OBS_SET_COMPOSITION_BAR_PLOT: 'obsSetCompositionBarPlot',
26
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: 'featureSetEnrichmentBarPlot',
24
27
  BIOMARKER_SELECT: 'biomarkerSelect',
28
+ COMPARATIVE_HEADING: 'comparativeHeading',
25
29
  LINK_CONTROLLER: 'linkController',
30
+ NEUROGLANCER: 'neuroglancer',
26
31
  DUAL_SCATTERPLOT: 'dualScatterplot',
32
+ TREEMAP: 'treemap',
27
33
  };
28
34
 
29
35
  export const DataType = {
@@ -41,6 +47,10 @@ export const DataType = {
41
47
  OBS_LOCATIONS: 'obsLocations',
42
48
  SAMPLE_SETS: 'sampleSets',
43
49
  SAMPLE_EDGES: 'sampleEdges',
50
+ COMPARISON_METADATA: 'comparisonMetadata',
51
+ FEATURE_STATS: 'featureStats',
52
+ FEATURE_SET_STATS: 'featureSetStats',
53
+ OBS_SET_STATS: 'obsSetStats',
44
54
  };
45
55
 
46
56
  export const AsyncFunctionType = {
@@ -95,6 +105,13 @@ export const FileType = {
95
105
  OBS_LABELS_ANNDATA_ZARR: 'obsLabels.anndata.zarr',
96
106
  FEATURE_LABELS_ANNDATA_ZARR: 'featureLabels.anndata.zarr',
97
107
  SAMPLE_EDGES_ANNDATA_ZARR: 'sampleEdges.anndata.zarr',
108
+ SAMPLE_SETS_ANNDATA_ZARR: 'sampleSets.anndata.zarr',
109
+
110
+ COMPARISON_METADATA_ANNDATA_ZARR: 'comparisonMetadata.anndata.zarr',
111
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR: 'comparativeFeatureStats.anndata.zarr',
112
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR: 'comparativeFeatureSetStats.anndata.zarr',
113
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR: 'comparativeObsSetStats.anndata.zarr',
114
+
98
115
  // AnnData - zipped
99
116
  OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP: 'obsFeatureMatrix.anndata.zarr.zip',
100
117
  OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP: 'obsFeatureColumns.anndata.zarr.zip',
@@ -107,6 +124,13 @@ export const FileType = {
107
124
  OBS_LABELS_ANNDATA_ZARR_ZIP: 'obsLabels.anndata.zarr.zip',
108
125
  FEATURE_LABELS_ANNDATA_ZARR_ZIP: 'featureLabels.anndata.zarr.zip',
109
126
  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: 'sampleEdges.anndata.zarr.zip',
127
+ SAMPLE_SETS_ANNDATA_ZARR_ZIP: 'sampleSets.anndata.zarr.zip',
128
+
129
+ COMPARISON_METADATA_ANNDATA_ZARR_ZIP: 'comparisonMetadata.anndata.zarr.zip',
130
+ COMPARATIVE_FEATURE_STATS_ANNDATA_ZARR_ZIP: 'comparativeFeatureStats.anndata.zarr.zip',
131
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_ZARR_ZIP: 'comparativeFeatureSetStats.anndata.zarr.zip',
132
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_ZARR_ZIP: 'comparativeObsSetStats.anndata.zarr.zip',
133
+
110
134
  // AnnData - h5ad via reference spec
111
135
  OBS_FEATURE_MATRIX_ANNDATA_H5AD: 'obsFeatureMatrix.anndata.h5ad',
112
136
  OBS_FEATURE_COLUMNS_ANNDATA_H5AD: 'obsFeatureColumns.anndata.h5ad',
@@ -119,6 +143,12 @@ export const FileType = {
119
143
  OBS_LABELS_ANNDATA_H5AD: 'obsLabels.anndata.h5ad',
120
144
  FEATURE_LABELS_ANNDATA_H5AD: 'featureLabels.anndata.h5ad',
121
145
  SAMPLE_EDGES_ANNDATA_H5AD: 'sampleEdges.anndata.h5ad',
146
+ SAMPLE_SETS_ANNDATA_H5AD: 'sampleSets.anndata.h5ad',
147
+
148
+ COMPARISON_METADATA_ANNDATA_H5AD: 'comparisonMetadata.anndata.h5ad',
149
+ COMPARATIVE_FEATURE_STATS_ANNDATA_H5AD: 'comparativeFeatureStats.anndata.h5ad',
150
+ COMPARATIVE_FEATURE_SET_STATS_ANNDATA_H5AD: 'comparativeFeatureSetStats.anndata.h5ad',
151
+ COMPARATIVE_OBS_SET_STATS_ANNDATA_H5AD: 'comparativeObsSetStats.anndata.h5ad',
122
152
  // SpatialData
123
153
  IMAGE_SPATIALDATA_ZARR: 'image.spatialdata.zarr',
124
154
  LABELS_SPATIALDATA_ZARR: 'labels.spatialdata.zarr',
@@ -310,12 +340,20 @@ export const CoordinationType = {
310
340
  SAMPLE_SET_FILTER: 'sampleSetFilter',
311
341
  SAMPLE_FILTER_MODE: 'sampleFilterMode',
312
342
  SAMPLE_SET_COLOR: 'sampleSetColor',
343
+ SAMPLE_HIGHLIGHT: 'sampleHighlight',
313
344
  EMBEDDING_POINTS_VISIBLE: 'embeddingPointsVisible',
314
345
  EMBEDDING_CONTOURS_VISIBLE: 'embeddingContoursVisible',
315
346
  EMBEDDING_CONTOURS_FILLED: 'embeddingContoursFilled',
316
347
  EMBEDDING_CONTOUR_PERCENTILES: 'embeddingContourPercentiles',
317
348
  CONTOUR_COLOR_ENCODING: 'contourColorEncoding',
318
349
  CONTOUR_COLOR: 'contourColor',
350
+ // For volcano plot:
351
+ FEATURE_POINT_SIGNIFICANCE_THRESHOLD: 'featurePointSignificanceThreshold',
352
+ FEATURE_LABEL_SIGNIFICANCE_THRESHOLD: 'featureLabelSignificanceThreshold',
353
+ FEATURE_POINT_FOLD_CHANGE_THRESHOLD: 'featurePointFoldChangeThreshold',
354
+ FEATURE_LABEL_FOLD_CHANGE_THRESHOLD: 'featureLabelFoldChangeThreshold',
355
+ // Treemap
356
+ HIERARCHY_LEVELS: 'hierarchyLevels',
319
357
  };
320
358
 
321
359
  export const STATUS = {
@@ -349,4 +387,9 @@ export const ViewHelpMapping = {
349
387
  FEATURE_VALUE_HISTOGRAM: 'The feature value histogram displays the distribution of values (e.g., expression) for the selected feature (e.g., gene).',
350
388
  DOT_PLOT: 'The dot plot displays summary information about expression of the selected features (e.g., genes) for each selected observation set (e.g., cell type).',
351
389
  FEATURE_BAR_PLOT: 'The feature bar plot displays one bar per observation (e.g., cell) along the x-axis, where the value of a selected feature (e.g., gene) is encoded along the y-axis.',
390
+ NEUROGLANCER: 'The Neuroglancer view displays 3d meshes using Neuroglancer developed by Google.',
391
+ TREEMAP: 'The treemap provides an overview of the current state of sample-level or cell-level selection and filtering.',
392
+ VOLCANO_PLOT: 'The volcano plot displays differential expression results. Each data point represents a feature (as opposed to an observation).',
393
+ OBS_SET_COMPOSITION_BAR_PLOT: 'The set composition bar plot displays the results of a compositional analysis conducted using the scCODA method (Büttner et al. 2021 Nature Communications).',
394
+ FEATURE_SET_ENRICHMENT_BAR_PLOT: 'The feature set enrichment bar plot displays the results of a hypergeometric test applied to the differential expression test results to identify enriched pathway gene sets.',
352
395
  };
package/src/coordination.ts CHANGED
@@ -32,6 +32,9 @@ export const AUTO_INDEPENDENT_COORDINATION_TYPES = [
32
32
  * Keys here are the component registry keys.
33
33
  */
34
34
  export const COMPONENT_COORDINATION_TYPES = {
35
+ [ViewType.NEUROGLANCER]: [
36
+ CoordinationType.DATASET,
37
+ ],
35
38
  [ViewType.SCATTERPLOT]: [
36
39
  CoordinationType.DATASET,
37
40
  CoordinationType.OBS_TYPE,
@@ -501,8 +504,64 @@ export const COMPONENT_COORDINATION_TYPES = {
501
504
  CoordinationType.OBS_COLOR_ENCODING,
502
505
  CoordinationType.ADDITIONAL_OBS_SETS,
503
506
  ],
507
+ [ViewType.VOLCANO_PLOT]: [
508
+ CoordinationType.DATASET,
509
+ CoordinationType.OBS_TYPE,
510
+ CoordinationType.FEATURE_TYPE,
511
+ CoordinationType.SAMPLE_TYPE,
512
+ // For selection of case-control sets of samples:
513
+ CoordinationType.SAMPLE_SET_SELECTION,
514
+ // For selection of one-vs-others sets of observations:
515
+ CoordinationType.OBS_SET_SELECTION,
516
+ // TODO: CoordinationType.FEATURE_SET_SELECTION,
517
+ // TODO: CoordinationType.FEATURE_SET_HIGHLIGHT,
518
+ // TODO: CoordinationType.FEATURE_SET_COLOR,
519
+ CoordinationType.FEATURE_HIGHLIGHT,
520
+ CoordinationType.FEATURE_SELECTION,
521
+ CoordinationType.FEATURE_VALUE_COLORMAP,
522
+ CoordinationType.FEATURE_VALUE_COLORMAP_RANGE,
523
+ // TODO: CoordinationType.FEATURE_COLOR_ENCODING,
524
+ // TODO: CoordinationType.ADDITIONAL_FEATURE_SETS,
525
+ CoordinationType.TOOLTIPS_VISIBLE,
526
+ CoordinationType.ADDITIONAL_OBS_SETS,
527
+ CoordinationType.OBS_SET_COLOR,
528
+ CoordinationType.SAMPLE_SET_COLOR,
529
+ CoordinationType.FEATURE_POINT_SIGNIFICANCE_THRESHOLD,
530
+ CoordinationType.FEATURE_LABEL_SIGNIFICANCE_THRESHOLD,
531
+ CoordinationType.FEATURE_POINT_FOLD_CHANGE_THRESHOLD,
532
+ CoordinationType.FEATURE_LABEL_FOLD_CHANGE_THRESHOLD,
533
+ ],
534
+ [ViewType.OBS_SET_COMPOSITION_BAR_PLOT]: [
535
+ CoordinationType.DATASET,
536
+ CoordinationType.OBS_TYPE,
537
+ CoordinationType.SAMPLE_TYPE,
538
+ // For selection of case-control sets of samples:
539
+ CoordinationType.SAMPLE_SET_SELECTION,
540
+ // For selection of one-vs-others sets of observations:
541
+ CoordinationType.OBS_SET_SELECTION,
542
+ CoordinationType.ADDITIONAL_OBS_SETS,
543
+ CoordinationType.OBS_SET_COLOR,
544
+ CoordinationType.SAMPLE_SET_COLOR,
545
+ ],
546
+ [ViewType.FEATURE_SET_ENRICHMENT_BAR_PLOT]: [
547
+ CoordinationType.DATASET,
548
+ CoordinationType.OBS_TYPE,
549
+ CoordinationType.FEATURE_TYPE,
550
+ CoordinationType.SAMPLE_TYPE,
551
+ // For selection of case-control sets of samples:
552
+ CoordinationType.SAMPLE_SET_SELECTION,
553
+ // For selection of one-vs-others sets of observations:
554
+ CoordinationType.OBS_SET_SELECTION,
555
+ CoordinationType.ADDITIONAL_OBS_SETS,
556
+ CoordinationType.OBS_SET_COLOR,
557
+ CoordinationType.SAMPLE_SET_COLOR,
558
+ CoordinationType.FEATURE_SELECTION,
559
+ ],
504
560
  [ViewType.LINK_CONTROLLER]: [],
505
561
  [ViewType.BIOMARKER_SELECT]: [
562
+ CoordinationType.DATASET,
563
+ CoordinationType.OBS_TYPE,
564
+ CoordinationType.SAMPLE_TYPE,
506
565
  CoordinationType.FEATURE_SELECTION,
507
566
  CoordinationType.SAMPLE_SET_SELECTION,
508
567
  CoordinationType.SAMPLE_SET_FILTER,
@@ -510,4 +569,40 @@ export const COMPONENT_COORDINATION_TYPES = {
510
569
  CoordinationType.OBS_SET_FILTER,
511
570
  // TODO: create coordination types for internal state of the biomarker selection view?
512
571
  ],
572
+ [ViewType.COMPARATIVE_HEADING]: [
573
+ CoordinationType.DATASET,
574
+ CoordinationType.OBS_TYPE,
575
+ CoordinationType.SAMPLE_TYPE,
576
+ CoordinationType.FEATURE_SELECTION,
577
+ CoordinationType.SAMPLE_SET_SELECTION,
578
+ CoordinationType.SAMPLE_SET_FILTER,
579
+ CoordinationType.OBS_SET_SELECTION,
580
+ CoordinationType.OBS_SET_FILTER,
581
+ ],
582
+ [ViewType.TREEMAP]: [
583
+ CoordinationType.DATASET,
584
+ CoordinationType.OBS_TYPE,
585
+ CoordinationType.FEATURE_TYPE,
586
+ CoordinationType.FEATURE_VALUE_TYPE,
587
+ CoordinationType.OBS_FILTER,
588
+ CoordinationType.OBS_HIGHLIGHT,
589
+ CoordinationType.OBS_SET_SELECTION,
590
+ CoordinationType.OBS_SET_FILTER,
591
+ CoordinationType.OBS_SELECTION,
592
+ CoordinationType.OBS_SELECTION_MODE,
593
+ CoordinationType.OBS_SET_HIGHLIGHT,
594
+ CoordinationType.OBS_SET_COLOR,
595
+ CoordinationType.OBS_COLOR_ENCODING,
596
+ CoordinationType.ADDITIONAL_OBS_SETS,
597
+ CoordinationType.SAMPLE_TYPE,
598
+ CoordinationType.SAMPLE_SET_SELECTION,
599
+ CoordinationType.SAMPLE_SET_FILTER,
600
+ CoordinationType.SAMPLE_SET_COLOR,
601
+ CoordinationType.SAMPLE_SELECTION,
602
+ CoordinationType.SAMPLE_SELECTION_MODE,
603
+ CoordinationType.SAMPLE_FILTER,
604
+ CoordinationType.SAMPLE_FILTER_MODE,
605
+ CoordinationType.SAMPLE_HIGHLIGHT,
606
+ CoordinationType.HIERARCHY_LEVELS,
607
+ ],
513
608
  };
package/src/version.json CHANGED
@@ -1,7 +1,7 @@
1
1
  {
2
2
  "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
3
- "version": "3.5.6",
4
- "date": "2025-01-29",
3
+ "version": "3.5.8",
4
+ "date": "2025-03-06",
5
5
  "branch": "changeset-release/main",
6
- "hash": "c8eedf07"
6
+ "hash": "9066c55a"
7
7
  }