@vitessce/constants-internal 3.4.10 → 3.4.12

package/dist/index.js

@@ -160,6 +160,7 @@ const CoordinationType = {
   FEATURE_TYPE: "featureType",
   FEATURE_VALUE_TYPE: "featureValueType",
   OBS_LABELS_TYPE: "obsLabelsType",
+  FEATURE_LABELS_TYPE: "featureLabelsType",
   // Other types
   EMBEDDING_TYPE: "embeddingType",
   EMBEDDING_ZOOM: "embeddingZoom",
@@ -283,6 +284,23 @@ const DescriptionType = {
   PLAIN: "plain",
   MARKDOWN: "markdown"
 };
+const ViewHelpMapping = {
+  SCATTERPLOT: "The scatterplot displays two-dimensional (pre-computed) dimensionality reduction results (such as from t-SNE or UMAP). Each point on the scatterplot represents an observation (e.g., cell).",
+  HEATMAP: "The heatmap displays an observation-by-feature (e.g., cell-by-gene) matrix, typically with transformed (e.g., normalized or standardized) values.",
+  SPATIAL: "The spatial view displays (potentially layered) spatially-resolved data including RGB or multiplexed images, segmentations of observations (bitmask- or polygon-based), and/or points (e.g., representing FISH transcripts).",
+  DESCRIPTION: "The description view displays additional information about a dataset. When images are included in a dataset, the description view also includes image metadata (if contained in the image files).",
+  STATUS: "The status view displays debugging messages, including app-wide error messages when datasets fail to load or when schemas fail to validate. Details about the entity under the mouse cursor (cell, gene, and/or molecule) are displayed during hover interactions.",
+  LAYER_CONTROLLER: "The spatial layer controller provides an interface for manipulating the visualization layers displayed in the spatial view.",
+  GENOMIC_PROFILES: "The genomic profiles view displays genome browser tracks (using the genomic-profiles data type) containing bar plots, where the genome is along the x-axis and the value at each genome position is encoded with a bar along the y-axis.",
+  GATING: "The gating scatterplot displays expression data for two genes (along the X and Y axes). Users can select two genes, and the scatterplot is dynamically generated using observation-by-feature matrix data. Gating can then be performed by using the lasso or box select tools.",
+  FEATURE_LIST: "The feature list controller displays an interactive list of features (e.g., genes).",
+  OBS_SETS: "The observation sets controller displays an interactive list of (potentially hierarchical) observation sets (e.g., cell clusters or cell type annotations).",
+  OBS_SET_SIZES: "The observation set sizes view displays a bar plot with the currently-selected observation sets (e.g., cell types) on the x-axis and bars representing their size (e.g., number of cells) on the y-axis.",
+  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).",
+  FEATURE_VALUE_HISTOGRAM: "The feature value histogram displays the distribution of values (e.g., expression) for the selected feature (e.g., gene).",
+  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).",
+  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."
+};
 const FILE_TYPE_DATA_TYPE_MAPPING = {
   // For new file types
   [FileType.OBS_EMBEDDING_CSV]: DataType.OBS_EMBEDDING,
@@ -870,10 +888,10 @@ const COMPONENT_COORDINATION_TYPES = {
   ]
 };
 const note = "This file is autogenerated by .changeset/post-changelog.mjs.";
-const version = "3.4.10";
-const date = "2024-09-01";
+const version = "3.4.12";
+const date = "2024-10-02";
 const branch = "changeset-release/main";
-const hash = "26b1c2d6";
+const hash = "ce99ac9e";
 const version$1 = {
   note,
   version,
@@ -893,5 +911,6 @@ export {
   FileType,
   version$1 as META_VERSION,
   STATUS,
+  ViewHelpMapping,
   ViewType
 };

package/dist-tsc/constants.d.ts

@@ -153,6 +153,7 @@ export declare const CoordinationType: {
     FEATURE_TYPE: string;
     FEATURE_VALUE_TYPE: string;
     OBS_LABELS_TYPE: string;
+    FEATURE_LABELS_TYPE: string;
     EMBEDDING_TYPE: string;
     EMBEDDING_ZOOM: string;
     EMBEDDING_ROTATION: string;
@@ -265,4 +266,25 @@ export declare const DescriptionType: {
     PLAIN: string;
     MARKDOWN: string;
 };
+/**
+ * Constants representing the help text for
+ * each view.
+ */
+export declare const ViewHelpMapping: {
+    SCATTERPLOT: string;
+    HEATMAP: string;
+    SPATIAL: string;
+    DESCRIPTION: string;
+    STATUS: string;
+    LAYER_CONTROLLER: string;
+    GENOMIC_PROFILES: string;
+    GATING: string;
+    FEATURE_LIST: string;
+    OBS_SETS: string;
+    OBS_SET_SIZES: string;
+    OBS_SET_FEATURE_VALUE_DISTRIBUTION: string;
+    FEATURE_VALUE_HISTOGRAM: string;
+    DOT_PLOT: string;
+    FEATURE_BAR_PLOT: string;
+};
 //# sourceMappingURL=constants.d.ts.map

package/dist-tsc/constants.d.ts.map

@@ -1 +1 @@
-{"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;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqHpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqH5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC;AAEF,eAAO,MAAM,eAAe;;;CAG3B,CAAC"}
+{"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;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqHpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAsH5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC;AAEF,eAAO,MAAM,eAAe;;;CAG3B,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,eAAe;;;;;;;;;;;;;;;;CAgB3B,CAAC"}

package/dist-tsc/constants.js

@@ -176,6 +176,7 @@ export const CoordinationType = {
     FEATURE_TYPE: 'featureType',
     FEATURE_VALUE_TYPE: 'featureValueType',
     OBS_LABELS_TYPE: 'obsLabelsType',
+    FEATURE_LABELS_TYPE: 'featureLabelsType',
     // Other types
     EMBEDDING_TYPE: 'embeddingType',
     EMBEDDING_ZOOM: 'embeddingZoom',
@@ -294,3 +295,24 @@ export const DescriptionType = {
     PLAIN: 'plain',
     MARKDOWN: 'markdown',
 };
+/**
+ * Constants representing the help text for
+ * each view.
+ */
+export const ViewHelpMapping = {
+    SCATTERPLOT: 'The scatterplot displays two-dimensional (pre-computed) dimensionality reduction results (such as from t-SNE or UMAP). Each point on the scatterplot represents an observation (e.g., cell).',
+    HEATMAP: 'The heatmap displays an observation-by-feature (e.g., cell-by-gene) matrix, typically with transformed (e.g., normalized or standardized) values.',
+    SPATIAL: 'The spatial view displays (potentially layered) spatially-resolved data including RGB or multiplexed images, segmentations of observations (bitmask- or polygon-based), and/or points (e.g., representing FISH transcripts).',
+    DESCRIPTION: 'The description view displays additional information about a dataset. When images are included in a dataset, the description view also includes image metadata (if contained in the image files).',
+    STATUS: 'The status view displays debugging messages, including app-wide error messages when datasets fail to load or when schemas fail to validate. Details about the entity under the mouse cursor (cell, gene, and/or molecule) are displayed during hover interactions.',
+    LAYER_CONTROLLER: 'The spatial layer controller provides an interface for manipulating the visualization layers displayed in the spatial view.',
+    GENOMIC_PROFILES: 'The genomic profiles view displays genome browser tracks (using the genomic-profiles data type) containing bar plots, where the genome is along the x-axis and the value at each genome position is encoded with a bar along the y-axis.',
+    GATING: 'The gating scatterplot displays expression data for two genes (along the X and Y axes). Users can select two genes, and the scatterplot is dynamically generated using observation-by-feature matrix data. Gating can then be performed by using the lasso or box select tools.',
+    FEATURE_LIST: 'The feature list controller displays an interactive list of features (e.g., genes).',
+    OBS_SETS: 'The observation sets controller displays an interactive list of (potentially hierarchical) observation sets (e.g., cell clusters or cell type annotations).',
+    OBS_SET_SIZES: 'The observation set sizes view displays a bar plot with the currently-selected observation sets (e.g., cell types) on the x-axis and bars representing their size (e.g., number of cells) on the y-axis.',
+    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).',
+    FEATURE_VALUE_HISTOGRAM: 'The feature value histogram displays the distribution of values (e.g., expression) for the selected feature (e.g., gene).',
+    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).',
+    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.',
+};

package/dist-tsc/index.d.ts

@@ -1,4 +1,4 @@
-export { ViewType, DataType, FileType, CoordinationType, STATUS, DescriptionType, } from './constants.js';
+export { ViewType, DataType, FileType, CoordinationType, STATUS, ViewHelpMapping, DescriptionType, } from './constants.js';
 export { FILE_TYPE_DATA_TYPE_MAPPING, DATA_TYPE_COORDINATION_VALUE_USAGE, ALT_ZARR_STORE_TYPES, } from './constant-relationships.js';
 export { AUTO_INDEPENDENT_COORDINATION_TYPES, COMPONENT_COORDINATION_TYPES } from './coordination.js';
 export { default as META_VERSION } from './version.json';

package/dist-tsc/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,QAAQ,EAAE,QAAQ,EAAE,QAAQ,EAAE,gBAAgB,EAAE,MAAM,EAAE,eAAe,GACxE,MAAM,gBAAgB,CAAC;AACxB,OAAO,EACL,2BAA2B,EAC3B,kCAAkC,EAClC,oBAAoB,GACrB,MAAM,6BAA6B,CAAC;AACrC,OAAO,EAAE,mCAAmC,EAAE,4BAA4B,EAAE,MAAM,mBAAmB,CAAC;AACtG,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,QAAQ,EAAE,QAAQ,EAAE,QAAQ,EAAE,gBAAgB,EAAE,MAAM,EAAE,eAAe,EAAE,eAAe,GACzF,MAAM,gBAAgB,CAAC;AACxB,OAAO,EACL,2BAA2B,EAC3B,kCAAkC,EAClC,oBAAoB,GACrB,MAAM,6BAA6B,CAAC;AACrC,OAAO,EAAE,mCAAmC,EAAE,4BAA4B,EAAE,MAAM,mBAAmB,CAAC;AACtG,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC"}

package/dist-tsc/index.js

@@ -1,4 +1,4 @@
-export { ViewType, DataType, FileType, CoordinationType, STATUS, DescriptionType, } from './constants.js';
+export { ViewType, DataType, FileType, CoordinationType, STATUS, ViewHelpMapping, DescriptionType, } from './constants.js';
 export { FILE_TYPE_DATA_TYPE_MAPPING, DATA_TYPE_COORDINATION_VALUE_USAGE, ALT_ZARR_STORE_TYPES, } from './constant-relationships.js';
 export { AUTO_INDEPENDENT_COORDINATION_TYPES, COMPONENT_COORDINATION_TYPES } from './coordination.js';
 export { default as META_VERSION } from './version.json';

package/dist-tsc/version.json

@@ -1,7 +1,7 @@
 {
     "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
-    "version": "3.4.10",
-    "date": "2024-09-01",
+    "version": "3.4.12",
+    "date": "2024-10-02",
     "branch": "changeset-release/main",
-    "hash": "26b1c2d6"
+    "hash": "ce99ac9e"
 }

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@vitessce/constants-internal",
-  "version": "3.4.10",
+  "version": "3.4.12",
   "author": "Gehlenborg Lab",
   "homepage": "http://vitessce.io",
   "repository": {

package/src/constants.ts

@@ -181,6 +181,7 @@ export const CoordinationType = {
   FEATURE_TYPE: 'featureType',
   FEATURE_VALUE_TYPE: 'featureValueType',
   OBS_LABELS_TYPE: 'obsLabelsType',
+  FEATURE_LABELS_TYPE: 'featureLabelsType',
   // Other types
   EMBEDDING_TYPE: 'embeddingType',
   EMBEDDING_ZOOM: 'embeddingZoom',
@@ -301,3 +302,25 @@ export const DescriptionType = {
   PLAIN: 'plain',
   MARKDOWN: 'markdown',
 };
+
+/**
+ * Constants representing the help text for
+ * each view.
+ */
+export const ViewHelpMapping = {
+  SCATTERPLOT: 'The scatterplot displays two-dimensional (pre-computed) dimensionality reduction results (such as from t-SNE or UMAP). Each point on the scatterplot represents an observation (e.g., cell).',
+  HEATMAP: 'The heatmap displays an observation-by-feature (e.g., cell-by-gene) matrix, typically with transformed (e.g., normalized or standardized) values.',
+  SPATIAL: 'The spatial view displays (potentially layered) spatially-resolved data including RGB or multiplexed images, segmentations of observations (bitmask- or polygon-based), and/or points (e.g., representing FISH transcripts).',
+  DESCRIPTION: 'The description view displays additional information about a dataset. When images are included in a dataset, the description view also includes image metadata (if contained in the image files).',
+  STATUS: 'The status view displays debugging messages, including app-wide error messages when datasets fail to load or when schemas fail to validate. Details about the entity under the mouse cursor (cell, gene, and/or molecule) are displayed during hover interactions.',
+  LAYER_CONTROLLER: 'The spatial layer controller provides an interface for manipulating the visualization layers displayed in the spatial view.',
+  GENOMIC_PROFILES: 'The genomic profiles view displays genome browser tracks (using the genomic-profiles data type) containing bar plots, where the genome is along the x-axis and the value at each genome position is encoded with a bar along the y-axis.',
+  GATING: 'The gating scatterplot displays expression data for two genes (along the X and Y axes). Users can select two genes, and the scatterplot is dynamically generated using observation-by-feature matrix data. Gating can then be performed by using the lasso or box select tools.',
+  FEATURE_LIST: 'The feature list controller displays an interactive list of features (e.g., genes).',
+  OBS_SETS: 'The observation sets controller displays an interactive list of (potentially hierarchical) observation sets (e.g., cell clusters or cell type annotations).',
+  OBS_SET_SIZES: 'The observation set sizes view displays a bar plot with the currently-selected observation sets (e.g., cell types) on the x-axis and bars representing their size (e.g., number of cells) on the y-axis.',
+  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).',
+  FEATURE_VALUE_HISTOGRAM: 'The feature value histogram displays the distribution of values (e.g., expression) for the selected feature (e.g., gene).',
+  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).',
+  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.',
+};

package/src/index.ts

@@ -1,5 +1,5 @@
 export {
-  ViewType, DataType, FileType, CoordinationType, STATUS, DescriptionType,
+  ViewType, DataType, FileType, CoordinationType, STATUS, ViewHelpMapping, DescriptionType,
 } from './constants.js';
 export {
   FILE_TYPE_DATA_TYPE_MAPPING,

package/src/version.json

@@ -1,7 +1,7 @@
 {
   "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
-  "version": "3.4.10",
-  "date": "2024-09-01",
+  "version": "3.4.12",
+  "date": "2024-10-02",
   "branch": "changeset-release/main",
-  "hash": "26b1c2d6"
+  "hash": "ce99ac9e"
 }