@vitessce/constants-internal 3.4.5 → 3.4.7

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.
package/dist/index.js CHANGED
@@ -14,6 +14,7 @@ const ViewType = {
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  OBS_SET_SIZES: "obsSetSizes",
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  OBS_SET_FEATURE_VALUE_DISTRIBUTION: "obsSetFeatureValueDistribution",
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  FEATURE_VALUE_HISTOGRAM: "featureValueHistogram",
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+ DOT_PLOT: "dotPlot",
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  FEATURE_BAR_PLOT: "featureBarPlot"
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  };
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  const DataType = {
@@ -203,6 +204,7 @@ const CoordinationType = {
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  GATING_FEATURE_SELECTION_X: "gatingFeatureSelectionX",
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  GATING_FEATURE_SELECTION_Y: "gatingFeatureSelectionY",
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  FEATURE_VALUE_TRANSFORM_COEFFICIENT: "featureValueTransformCoefficient",
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+ FEATURE_VALUE_POSITIVITY_THRESHOLD: "featureValuePositivityThreshold",
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  TOOLTIPS_VISIBLE: "tooltipsVisible",
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  FILE_UID: "fileUid",
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  IMAGE_LAYER: "imageLayer",
@@ -250,7 +252,14 @@ const CoordinationType = {
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  SPATIAL_CHANNEL_LABEL_SIZE: "spatialChannelLabelSize",
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  // Multi-sample / comparative
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  SAMPLE_TYPE: "sampleType",
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- SAMPLE_SET_SELECTION: "sampleSetSelection"
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+ SAMPLE_SET_SELECTION: "sampleSetSelection",
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+ SAMPLE_SET_COLOR: "sampleSetColor",
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+ EMBEDDING_POINTS_VISIBLE: "embeddingPointsVisible",
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+ EMBEDDING_CONTOURS_VISIBLE: "embeddingContoursVisible",
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+ EMBEDDING_CONTOURS_FILLED: "embeddingContoursFilled",
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+ EMBEDDING_CONTOUR_PERCENTILES: "embeddingContourPercentiles",
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+ CONTOUR_COLOR_ENCODING: "contourColorEncoding",
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+ CONTOUR_COLOR: "contourColor"
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  };
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  const STATUS = {
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  LOADING: "loading",
@@ -446,7 +455,16 @@ const COMPONENT_COORDINATION_TYPES = {
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  CoordinationType.FEATURE_VALUE_COLORMAP_RANGE,
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  CoordinationType.OBS_COLOR_ENCODING,
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  CoordinationType.ADDITIONAL_OBS_SETS,
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- CoordinationType.TOOLTIPS_VISIBLE
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+ CoordinationType.TOOLTIPS_VISIBLE,
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+ CoordinationType.SAMPLE_TYPE,
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+ CoordinationType.SAMPLE_SET_SELECTION,
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+ CoordinationType.SAMPLE_SET_COLOR,
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+ CoordinationType.EMBEDDING_POINTS_VISIBLE,
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+ CoordinationType.EMBEDDING_CONTOURS_VISIBLE,
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+ CoordinationType.EMBEDDING_CONTOURS_FILLED,
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+ CoordinationType.EMBEDDING_CONTOUR_PERCENTILES,
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+ CoordinationType.CONTOUR_COLOR_ENCODING,
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+ CoordinationType.CONTOUR_COLOR
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  ],
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  [ViewType.GATING]: [
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  CoordinationType.DATASET,
@@ -663,7 +681,8 @@ const COMPONENT_COORDINATION_TYPES = {
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  CoordinationType.OBS_SET_COLOR,
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  CoordinationType.ADDITIONAL_OBS_SETS,
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  CoordinationType.SAMPLE_TYPE,
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- CoordinationType.SAMPLE_SET_SELECTION
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+ CoordinationType.SAMPLE_SET_SELECTION,
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+ CoordinationType.SAMPLE_SET_COLOR
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  ],
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  [ViewType.FEATURE_VALUE_HISTOGRAM]: [
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  CoordinationType.DATASET,
@@ -776,6 +795,26 @@ const COMPONENT_COORDINATION_TYPES = {
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  CoordinationType.DATASET,
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  CoordinationType.SPATIAL_IMAGE_LAYER
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  ],
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+ [ViewType.DOT_PLOT]: [
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+ CoordinationType.DATASET,
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+ CoordinationType.OBS_TYPE,
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+ CoordinationType.FEATURE_TYPE,
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+ CoordinationType.FEATURE_VALUE_TYPE,
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+ CoordinationType.FEATURE_SELECTION,
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+ CoordinationType.FEATURE_HIGHLIGHT,
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+ CoordinationType.FEATURE_FILTER,
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+ CoordinationType.FEATURE_VALUE_TRANSFORM,
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+ CoordinationType.FEATURE_VALUE_TRANSFORM_COEFFICIENT,
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+ CoordinationType.FEATURE_VALUE_POSITIVITY_THRESHOLD,
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+ CoordinationType.FEATURE_VALUE_COLORMAP,
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+ CoordinationType.OBS_SET_SELECTION,
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+ CoordinationType.OBS_SET_HIGHLIGHT,
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+ CoordinationType.OBS_SET_COLOR,
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+ CoordinationType.ADDITIONAL_OBS_SETS,
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+ CoordinationType.SAMPLE_TYPE,
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+ CoordinationType.SAMPLE_SET_SELECTION,
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+ CoordinationType.SAMPLE_SET_COLOR
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+ ],
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  higlass: [
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  CoordinationType.DATASET,
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  CoordinationType.GENOMIC_ZOOM_X,
@@ -803,10 +842,10 @@ const COMPONENT_COORDINATION_TYPES = {
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  ]
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  };
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  const note = "This file is autogenerated by .changeset/post-changelog.mjs.";
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- const version = "3.4.5";
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- const date = "2024-05-09";
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+ const version = "3.4.7";
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+ const date = "2024-07-25";
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  const branch = "changeset-release/main";
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- const hash = "4a902556";
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+ const hash = "efed9951";
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  const version$1 = {
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  note,
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  version,
@@ -19,6 +19,7 @@ export declare const ViewType: {
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  OBS_SET_SIZES: string;
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  OBS_SET_FEATURE_VALUE_DISTRIBUTION: string;
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  FEATURE_VALUE_HISTOGRAM: string;
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+ DOT_PLOT: string;
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  FEATURE_BAR_PLOT: string;
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  };
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  export declare const DataType: {
@@ -37,6 +38,13 @@ export declare const DataType: {
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  SAMPLE_SETS: string;
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  SAMPLE_EDGES: string;
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  };
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+ export declare const AsyncFunctionType: {
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+ FEATURE_METADATA: string;
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+ FEATURE_EDGES: string;
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+ FEATURE_TO_INTERVAL: string;
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+ OBS_SET_TO_FEATURES: string;
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+ FEATURES_TO_OBS_SET: string;
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+ };
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  export declare const FileType: {
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  ANNDATA_ZARR: string;
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  ANNDATA_ZARR_ZIP: string;
@@ -188,6 +196,7 @@ export declare const CoordinationType: {
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  GATING_FEATURE_SELECTION_X: string;
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  GATING_FEATURE_SELECTION_Y: string;
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  FEATURE_VALUE_TRANSFORM_COEFFICIENT: string;
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+ FEATURE_VALUE_POSITIVITY_THRESHOLD: string;
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  TOOLTIPS_VISIBLE: string;
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  FILE_UID: string;
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  IMAGE_LAYER: string;
@@ -227,6 +236,13 @@ export declare const CoordinationType: {
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  SPATIAL_CHANNEL_LABEL_SIZE: string;
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  SAMPLE_TYPE: string;
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  SAMPLE_SET_SELECTION: string;
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+ SAMPLE_SET_COLOR: string;
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+ EMBEDDING_POINTS_VISIBLE: string;
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+ EMBEDDING_CONTOURS_VISIBLE: string;
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+ EMBEDDING_CONTOURS_FILLED: string;
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+ EMBEDDING_CONTOUR_PERCENTILES: string;
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+ CONTOUR_COLOR_ENCODING: string;
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+ CONTOUR_COLOR: string;
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  };
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  export declare const STATUS: {
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  LOADING: string;
@@ -1 +1 @@
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- {"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;CAiBpB,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;CAepB,CAAC;AAGF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAwGpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CA6G5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC"}
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+ {"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;CAkBpB,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;CAepB,CAAC;AAEF,eAAO,MAAM,iBAAiB;;;;;;CAM7B,CAAC;AAGF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAwGpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqH5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC"}
@@ -19,6 +19,7 @@ export const ViewType = {
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  OBS_SET_SIZES: 'obsSetSizes',
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  OBS_SET_FEATURE_VALUE_DISTRIBUTION: 'obsSetFeatureValueDistribution',
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  FEATURE_VALUE_HISTOGRAM: 'featureValueHistogram',
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+ DOT_PLOT: 'dotPlot',
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  FEATURE_BAR_PLOT: 'featureBarPlot',
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  };
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  export const DataType = {
@@ -37,6 +38,13 @@ export const DataType = {
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  SAMPLE_SETS: 'sampleSets',
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  SAMPLE_EDGES: 'sampleEdges',
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  };
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+ export const AsyncFunctionType = {
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+ FEATURE_METADATA: 'featureMetadata', // (featureName, featureType) -> metadata object
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+ FEATURE_EDGES: 'featureEdges', // (featureName, featureType, targetFeatureType) -> list of features from target modality
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+ FEATURE_TO_INTERVAL: 'featureToInterval', // (featureName, featureType) -> genomic interval { chr, start, end }
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+ OBS_SET_TO_FEATURES: 'obsSetToFeatures', // (cell type name) -> list of feature names
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+ FEATURES_TO_OBS_SET: 'featuresToObsSet', // (list of feature names) -> cell type name
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+ };
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  export const FileType = {
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  // Joint file types
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  ANNDATA_ZARR: 'anndata.zarr',
@@ -212,6 +220,7 @@ export const CoordinationType = {
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  GATING_FEATURE_SELECTION_X: 'gatingFeatureSelectionX',
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  GATING_FEATURE_SELECTION_Y: 'gatingFeatureSelectionY',
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  FEATURE_VALUE_TRANSFORM_COEFFICIENT: 'featureValueTransformCoefficient',
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+ FEATURE_VALUE_POSITIVITY_THRESHOLD: 'featureValuePositivityThreshold',
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  TOOLTIPS_VISIBLE: 'tooltipsVisible',
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  FILE_UID: 'fileUid',
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  IMAGE_LAYER: 'imageLayer',
@@ -255,6 +264,13 @@ export const CoordinationType = {
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  // Multi-sample / comparative
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  SAMPLE_TYPE: 'sampleType',
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  SAMPLE_SET_SELECTION: 'sampleSetSelection',
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+ SAMPLE_SET_COLOR: 'sampleSetColor',
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+ EMBEDDING_POINTS_VISIBLE: 'embeddingPointsVisible',
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+ EMBEDDING_CONTOURS_VISIBLE: 'embeddingContoursVisible',
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+ EMBEDDING_CONTOURS_FILLED: 'embeddingContoursFilled',
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+ EMBEDDING_CONTOUR_PERCENTILES: 'embeddingContourPercentiles',
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+ CONTOUR_COLOR_ENCODING: 'contourColorEncoding',
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+ CONTOUR_COLOR: 'contourColor',
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  };
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  export const STATUS = {
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  LOADING: 'loading',
@@ -1 +1 @@
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- {"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;;;CAkYxC,CAAC"}
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+ {"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;;;CAgaxC,CAAC"}
@@ -61,6 +61,15 @@ export const COMPONENT_COORDINATION_TYPES = {
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  CoordinationType.OBS_COLOR_ENCODING,
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  CoordinationType.ADDITIONAL_OBS_SETS,
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  CoordinationType.TOOLTIPS_VISIBLE,
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+ CoordinationType.SAMPLE_TYPE,
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+ CoordinationType.SAMPLE_SET_SELECTION,
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+ CoordinationType.SAMPLE_SET_COLOR,
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+ CoordinationType.EMBEDDING_POINTS_VISIBLE,
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+ CoordinationType.EMBEDDING_CONTOURS_VISIBLE,
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+ CoordinationType.EMBEDDING_CONTOURS_FILLED,
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+ CoordinationType.EMBEDDING_CONTOUR_PERCENTILES,
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+ CoordinationType.CONTOUR_COLOR_ENCODING,
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+ CoordinationType.CONTOUR_COLOR,
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  ],
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  [ViewType.GATING]: [
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  CoordinationType.DATASET,
@@ -278,6 +287,7 @@ export const COMPONENT_COORDINATION_TYPES = {
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  CoordinationType.ADDITIONAL_OBS_SETS,
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  CoordinationType.SAMPLE_TYPE,
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  CoordinationType.SAMPLE_SET_SELECTION,
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+ CoordinationType.SAMPLE_SET_COLOR,
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  ],
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  [ViewType.FEATURE_VALUE_HISTOGRAM]: [
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  CoordinationType.DATASET,
@@ -390,6 +400,26 @@ export const COMPONENT_COORDINATION_TYPES = {
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  CoordinationType.DATASET,
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  CoordinationType.SPATIAL_IMAGE_LAYER,
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  ],
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+ [ViewType.DOT_PLOT]: [
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+ CoordinationType.DATASET,
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+ CoordinationType.OBS_TYPE,
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+ CoordinationType.FEATURE_TYPE,
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+ CoordinationType.FEATURE_VALUE_TYPE,
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+ CoordinationType.FEATURE_SELECTION,
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+ CoordinationType.FEATURE_HIGHLIGHT,
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+ CoordinationType.FEATURE_FILTER,
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+ CoordinationType.FEATURE_VALUE_TRANSFORM,
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+ CoordinationType.FEATURE_VALUE_TRANSFORM_COEFFICIENT,
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+ CoordinationType.FEATURE_VALUE_POSITIVITY_THRESHOLD,
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+ CoordinationType.FEATURE_VALUE_COLORMAP,
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+ CoordinationType.OBS_SET_SELECTION,
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+ CoordinationType.OBS_SET_HIGHLIGHT,
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+ CoordinationType.OBS_SET_COLOR,
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+ CoordinationType.ADDITIONAL_OBS_SETS,
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+ CoordinationType.SAMPLE_TYPE,
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+ CoordinationType.SAMPLE_SET_SELECTION,
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+ CoordinationType.SAMPLE_SET_COLOR,
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+ ],
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  higlass: [
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  CoordinationType.DATASET,
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  CoordinationType.GENOMIC_ZOOM_X,
@@ -1,7 +1,7 @@
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  {
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  "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
3
- "version": "3.4.5",
4
- "date": "2024-05-09",
3
+ "version": "3.4.7",
4
+ "date": "2024-07-25",
5
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  "branch": "changeset-release/main",
6
- "hash": "4a902556"
6
+ "hash": "efed9951"
7
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  }
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
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  {
2
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  "name": "@vitessce/constants-internal",
3
- "version": "3.4.5",
3
+ "version": "3.4.7",
4
4
  "author": "Gehlenborg Lab",
5
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  "homepage": "http://vitessce.io",
6
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  "repository": {
package/src/constants.ts CHANGED
@@ -19,6 +19,7 @@ export const ViewType = {
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  OBS_SET_SIZES: 'obsSetSizes',
20
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  OBS_SET_FEATURE_VALUE_DISTRIBUTION: 'obsSetFeatureValueDistribution',
21
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  FEATURE_VALUE_HISTOGRAM: 'featureValueHistogram',
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+ DOT_PLOT: 'dotPlot',
22
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  FEATURE_BAR_PLOT: 'featureBarPlot',
23
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  };
24
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@@ -39,6 +40,14 @@ export const DataType = {
39
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  SAMPLE_EDGES: 'sampleEdges',
40
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  };
41
42
 
43
+ export const AsyncFunctionType = {
44
+ FEATURE_METADATA: 'featureMetadata', // (featureName, featureType) -> metadata object
45
+ FEATURE_EDGES: 'featureEdges', // (featureName, featureType, targetFeatureType) -> list of features from target modality
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+ FEATURE_TO_INTERVAL: 'featureToInterval', // (featureName, featureType) -> genomic interval { chr, start, end }
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+ OBS_SET_TO_FEATURES: 'obsSetToFeatures', // (cell type name) -> list of feature names
48
+ FEATURES_TO_OBS_SET: 'featuresToObsSet', // (list of feature names) -> cell type name
49
+ };
50
+
42
51
 
43
52
  export const FileType = {
44
53
  // Joint file types
@@ -216,6 +225,7 @@ export const CoordinationType = {
216
225
  GATING_FEATURE_SELECTION_X: 'gatingFeatureSelectionX',
217
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  GATING_FEATURE_SELECTION_Y: 'gatingFeatureSelectionY',
218
227
  FEATURE_VALUE_TRANSFORM_COEFFICIENT: 'featureValueTransformCoefficient',
228
+ FEATURE_VALUE_POSITIVITY_THRESHOLD: 'featureValuePositivityThreshold',
219
229
  TOOLTIPS_VISIBLE: 'tooltipsVisible',
220
230
  FILE_UID: 'fileUid',
221
231
  IMAGE_LAYER: 'imageLayer',
@@ -259,6 +269,13 @@ export const CoordinationType = {
259
269
  // Multi-sample / comparative
260
270
  SAMPLE_TYPE: 'sampleType',
261
271
  SAMPLE_SET_SELECTION: 'sampleSetSelection',
272
+ SAMPLE_SET_COLOR: 'sampleSetColor',
273
+ EMBEDDING_POINTS_VISIBLE: 'embeddingPointsVisible',
274
+ EMBEDDING_CONTOURS_VISIBLE: 'embeddingContoursVisible',
275
+ EMBEDDING_CONTOURS_FILLED: 'embeddingContoursFilled',
276
+ EMBEDDING_CONTOUR_PERCENTILES: 'embeddingContourPercentiles',
277
+ CONTOUR_COLOR_ENCODING: 'contourColorEncoding',
278
+ CONTOUR_COLOR: 'contourColor',
262
279
  };
263
280
 
264
281
  export const STATUS = {
@@ -63,6 +63,15 @@ export const COMPONENT_COORDINATION_TYPES = {
63
63
  CoordinationType.OBS_COLOR_ENCODING,
64
64
  CoordinationType.ADDITIONAL_OBS_SETS,
65
65
  CoordinationType.TOOLTIPS_VISIBLE,
66
+ CoordinationType.SAMPLE_TYPE,
67
+ CoordinationType.SAMPLE_SET_SELECTION,
68
+ CoordinationType.SAMPLE_SET_COLOR,
69
+ CoordinationType.EMBEDDING_POINTS_VISIBLE,
70
+ CoordinationType.EMBEDDING_CONTOURS_VISIBLE,
71
+ CoordinationType.EMBEDDING_CONTOURS_FILLED,
72
+ CoordinationType.EMBEDDING_CONTOUR_PERCENTILES,
73
+ CoordinationType.CONTOUR_COLOR_ENCODING,
74
+ CoordinationType.CONTOUR_COLOR,
66
75
  ],
67
76
  [ViewType.GATING]: [
68
77
  CoordinationType.DATASET,
@@ -280,6 +289,7 @@ export const COMPONENT_COORDINATION_TYPES = {
280
289
  CoordinationType.ADDITIONAL_OBS_SETS,
281
290
  CoordinationType.SAMPLE_TYPE,
282
291
  CoordinationType.SAMPLE_SET_SELECTION,
292
+ CoordinationType.SAMPLE_SET_COLOR,
283
293
  ],
284
294
  [ViewType.FEATURE_VALUE_HISTOGRAM]: [
285
295
  CoordinationType.DATASET,
@@ -392,6 +402,26 @@ export const COMPONENT_COORDINATION_TYPES = {
392
402
  CoordinationType.DATASET,
393
403
  CoordinationType.SPATIAL_IMAGE_LAYER,
394
404
  ],
405
+ [ViewType.DOT_PLOT]: [
406
+ CoordinationType.DATASET,
407
+ CoordinationType.OBS_TYPE,
408
+ CoordinationType.FEATURE_TYPE,
409
+ CoordinationType.FEATURE_VALUE_TYPE,
410
+ CoordinationType.FEATURE_SELECTION,
411
+ CoordinationType.FEATURE_HIGHLIGHT,
412
+ CoordinationType.FEATURE_FILTER,
413
+ CoordinationType.FEATURE_VALUE_TRANSFORM,
414
+ CoordinationType.FEATURE_VALUE_TRANSFORM_COEFFICIENT,
415
+ CoordinationType.FEATURE_VALUE_POSITIVITY_THRESHOLD,
416
+ CoordinationType.FEATURE_VALUE_COLORMAP,
417
+ CoordinationType.OBS_SET_SELECTION,
418
+ CoordinationType.OBS_SET_HIGHLIGHT,
419
+ CoordinationType.OBS_SET_COLOR,
420
+ CoordinationType.ADDITIONAL_OBS_SETS,
421
+ CoordinationType.SAMPLE_TYPE,
422
+ CoordinationType.SAMPLE_SET_SELECTION,
423
+ CoordinationType.SAMPLE_SET_COLOR,
424
+ ],
395
425
  higlass: [
396
426
  CoordinationType.DATASET,
397
427
  CoordinationType.GENOMIC_ZOOM_X,
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": "3.4.5",
4
- "date": "2024-05-09",
3
+ "version": "3.4.7",
4
+ "date": "2024-07-25",
5
5
  "branch": "changeset-release/main",
6
- "hash": "4a902556"
6
+ "hash": "efed9951"
7
7
  }