react-mutation-mapper 0.8.87 → 0.8.89
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/component/column/Annotation.d.ts +2 -0
- package/dist/component/mutationMapper/FilterResetPanel.d.ts +1 -0
- package/dist/filter/ProteinChangeFilter.d.ts +2 -0
- package/dist/index.es.js +28 -9
- package/dist/index.es.js.map +1 -1
- package/dist/index.js +28 -8
- package/dist/index.js.map +1 -1
- package/dist/model/DataFilter.d.ts +2 -1
- package/dist/store/DefaultMutationMapperFilterApplier.d.ts +2 -0
- package/dist/styles.css +3 -3
- package/dist/util/FilterUtils.d.ts +2 -0
- package/package.json +3 -3
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@@ -25,6 +25,7 @@ export declare type AnnotationProps = {
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[genomicLocation: string]: VariantAnnotation;
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} | undefined>;
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userDisplayName?: string;
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hasMultipleCancerTypes?: boolean;
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};
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export declare type GenericAnnotationProps = {
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annotation: IAnnotation;
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@@ -37,6 +38,7 @@ export declare type GenericAnnotationProps = {
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oncoKbContentPadding?: number;
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pubMedCache?: MobxCache;
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userDisplayName?: string;
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hasMultipleCancerTypes?: boolean;
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};
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export interface IAnnotation {
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isHotspot: boolean;
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package/dist/index.es.js
CHANGED
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@@ -559,7 +559,7 @@ function initOncoKbClient(oncoKbUrl, cachePostMethods, apiCacheLimit) {
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return client;
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}
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-
var img = "data:image/png;base64,
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var img = "data:image/png;base64,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";
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var RevueTooltipContent = function (props) {
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return (React__default.createElement("div", null,
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@@ -738,10 +738,10 @@ function sortValue$4(annotation) {
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]);
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}
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function GenericAnnotation(props) {
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var annotation = props.annotation, enableCivic = props.enableCivic, enableHotspot = props.enableHotspot, enableMyCancerGenome = props.enableMyCancerGenome, enableOncoKb = props.enableOncoKb, enableRevue = props.enableRevue; props.pubMedCache; var userDisplayName = props.userDisplayName, mergeOncoKbIcons = props.mergeOncoKbIcons, oncoKbContentPadding = props.oncoKbContentPadding;
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var annotation = props.annotation, enableCivic = props.enableCivic, enableHotspot = props.enableHotspot, enableMyCancerGenome = props.enableMyCancerGenome, enableOncoKb = props.enableOncoKb, enableRevue = props.enableRevue; props.pubMedCache; var userDisplayName = props.userDisplayName, mergeOncoKbIcons = props.mergeOncoKbIcons, oncoKbContentPadding = props.oncoKbContentPadding, hasMultipleCancerTypes = props.hasMultipleCancerTypes;
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return (React.createElement("span", { style: { display: 'flex', minWidth: 100 } },
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enableOncoKb && (React.createElement(OncoKB, { usingPublicOncoKbInstance: annotation.usingPublicOncoKbInstance, hugoGeneSymbol: annotation.hugoGeneSymbol, geneNotExist: !annotation.oncoKbGeneExist, isCancerGene: annotation.isOncoKbCancerGene, status: annotation.oncoKbStatus, indicator: annotation.oncoKbIndicator, availableDataTypes: annotation.oncoKbAvailableDataTypes, mergeAnnotationIcons: mergeOncoKbIcons, userDisplayName: userDisplayName, contentPadding: oncoKbContentPadding })),
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enableRevue
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enableOncoKb && (React.createElement(OncoKB, { usingPublicOncoKbInstance: annotation.usingPublicOncoKbInstance, hugoGeneSymbol: annotation.hugoGeneSymbol, geneNotExist: !annotation.oncoKbGeneExist, isCancerGene: annotation.isOncoKbCancerGene, status: annotation.oncoKbStatus, indicator: annotation.oncoKbIndicator, availableDataTypes: annotation.oncoKbAvailableDataTypes, mergeAnnotationIcons: mergeOncoKbIcons, userDisplayName: userDisplayName, contentPadding: oncoKbContentPadding, hasMultipleCancerTypes: hasMultipleCancerTypes })),
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enableRevue ? (annotation.vue ? (React.createElement(RevueCell, { vue: annotation.vue })) : (React.createElement("span", { className: "" + annotationStyles['annotation-item'] }))) : (React.createElement(React.Fragment, null)),
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enableCivic && (React.createElement(Civic, { civicEntry: annotation.civicEntry, civicStatus: annotation.civicStatus, hasCivicVariants: annotation.hasCivicVariants })),
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enableMyCancerGenome && (React.createElement(MyCancerGenome, { linksHTML: annotation.myCancerGenomeLinks })),
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enableHotspot && (React.createElement(HotspotAnnotation, { isHotspot: annotation.isHotspot, is3dHotspot: annotation.is3dHotspot, status: annotation.hotspotStatus }))));
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@@ -2581,8 +2581,10 @@ var FilterResetPanel = /** @class */ (function (_super) {
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value: function () {
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return (React.createElement("div", { className: this.props.className, "data-test": "filter-reset-panel" },
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React.createElement("span", { style: { verticalAlign: 'middle' } },
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this.props.filterInfo,
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React.createElement("button", { className: this.props.buttonClass, style: { cursor: 'pointer', marginLeft: 6 }, onClick: this.props.resetFilters }, this.props.buttonText)
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React.createElement("strong", null, this.props.filterInfo),
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React.createElement("button", { className: this.props.buttonClass, style: { cursor: 'pointer', marginLeft: 6 }, onClick: this.props.resetFilters }, this.props.buttonText),
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React.createElement("br", null),
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this.props.additionalInfo)));
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}
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});
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Object.defineProperty(FilterResetPanel, "defaultProps", {
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@@ -2610,6 +2612,7 @@ var DataFilterType;
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DataFilterType["CANCER_TYPE"] = "cancerType";
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DataFilterType["PROTEIN_IMPACT_TYPE"] = "proteinImpactType";
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DataFilterType["MUTATION_STATUS"] = "mutationStatus";
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DataFilterType["PROTEIN_CHANGE"] = "proteinChange";
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})(DataFilterType || (DataFilterType = {}));
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var TEXT_INPUT_FILTER_ID = '_mutationTableTextInputFilter_';
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@@ -2692,6 +2695,12 @@ function applyDefaultPositionFilter(filter, mutation) {
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function applyDefaultProteinImpactTypeFilter(filter, mutation) {
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return filter.values.includes(getProteinImpactType(mutation.mutationType || 'other'));
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}
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function applyDefaultProteinChangeFilter(filter, mutation) {
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return (mutation.proteinChange !== undefined &&
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___default.some(filter.values, function (value) {
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return value.toLowerCase() === mutation.proteinChange.toLowerCase();
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}));
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}
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function applyDefaultMutationStatusFilter(filter, mutation) {
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return (mutation.mutationStatus !== undefined &&
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___default.some(filter.values, function (value) {
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@@ -5965,7 +5974,6 @@ var PercentToggle = /** @class */ (function (_super) {
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} },
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React.createElement("div", { style: {
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marginLeft: 10,
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marginRight: 10,
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} },
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React.createElement("div", { style: { textAlign: 'center' } }, "Y-Axis:"),
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React.createElement(AxisScaleSwitch, { selectedScale: this.props.axisMode, onChange: this.props.onScaleToggle }))));
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@@ -9540,7 +9548,7 @@ var DefaultMutationMapperFilterApplier = /** @class */ (function () {
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get: function () {
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var _a;
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return __assign((_a = {}, _a[DataFilterType.POSITION] = this.applyPositionFilter, _a[DataFilterType.ONCOKB] = this.applyOncoKbFilter, _a[DataFilterType.HOTSPOT] = this.applyHostpotFilter, _a[DataFilterType.MUTATION] = this.applyMutationFilter, _a[DataFilterType.PROTEIN_IMPACT_TYPE] = this
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.applyProteinImpactTypeFilter, _a[DataFilterType.MUTATION_STATUS] = this.applyMutationStatusFilter, _a), this.filterAppliersOverride);
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.applyProteinImpactTypeFilter, _a[DataFilterType.MUTATION_STATUS] = this.applyMutationStatusFilter, _a[DataFilterType.PROTEIN_CHANGE] = this.applyProteinChangeFilter, _a), this.filterAppliersOverride);
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},
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enumerable: false,
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configurable: true
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return applyDefaultMutationStatusFilter(filter, mutation);
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}
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});
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Object.defineProperty(DefaultMutationMapperFilterApplier.prototype, "applyProteinChangeFilter", {
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enumerable: false,
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configurable: true,
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writable: true,
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value: function (filter, mutation) {
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return applyDefaultProteinChangeFilter(filter, mutation);
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}
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});
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__decorate([
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autobind
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], DefaultMutationMapperFilterApplier.prototype, "applyFilter", null);
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__decorate([
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autobind
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], DefaultMutationMapperFilterApplier.prototype, "applyMutationStatusFilter", null);
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__decorate([
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autobind
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], DefaultMutationMapperFilterApplier.prototype, "applyProteinChangeFilter", null);
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return DefaultMutationMapperFilterApplier;
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}());
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return MutationMapper;
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}(React.Component));
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-
export { Annotation, AxisScale, AxisScaleSwitch, BadgeLabel, BadgeSelector, Civic, ClinvarInterpretation, ClinvarSummary, ColumnHeader, ColumnSelector, ColumnSortDirection, DEFAULT_ANNOTATION_DATA, DEFAULT_GENOME_NEXUS_URL, DEFAULT_MUTATION_ALIGNER_PROXY_URL_TEMPLATE, DEFAULT_MUTATION_ALIGNER_URL_TEMPLATE, DEFAULT_MUTATION_COLUMNS, DEFAULT_MY_GENE_URL_TEMPLATE, DEFAULT_ONCO_KB_URL, DEFAULT_PROTEIN_IMPACT_TYPE_COLORS, DEFAULT_UNIPROT_ID_URL_TEMPLATE, DataFilterType, DataTable, Dbsnp, DbsnpId, DefaultMutationMapperDataFetcher, DefaultMutationMapperDataStore, DefaultMutationMapperFilterApplier, DefaultMutationMapperStore, DefaultMutationTable, Domain, DropdownSelector, FilterResetPanel, GenericAnnotation, Gnomad, GnomadFrequency, GnomadFrequencyBreakdown, GnomadFrequencyTable, GnomadFrequencyValue, Hgvsc, Hgvsg, HotspotAnnotation, HotspotInfo, Lollipop, LollipopMutationPlot, LollipopPlot, LollipopPlotNoTooltip, LollipopTooltipCountInfo, MUTATION_COLUMNS_DEFINITION, MUTATION_COLUMN_HEADERS, MUTATION_STATUS_BADGE_STYLE_OVERRIDE, MUTATION_TYPE_PRIORITY, MutationColumn, MutationColumnName, MutationMapper, MutationStatus, MutationStatusBadgeSelector, MyCancerGenome, ONCOKB_DEFAULT_DATA, ONCOKB_DEFAULT_INFO, PercentToggle, ProteinChange, ProteinImpactTypeBadgeSelector, ProteinImpactTypeDropdownSelector, RevueCell, RevueTooltipContent, LollipopPlot as Sequence, Signal, SignalTable, TEXT_INPUT_FILTER_ID, TrackName, TrackSelector, USE_DEFAULT_PUBLIC_INSTANCE_FOR_ONCOKB, sortValue$4 as annotationSortValue, applyDataFilters, applyDataFiltersOnDatum, applyDefaultMutationFilter, applyDefaultMutationStatusFilter, applyDefaultPositionFilter, applyDefaultProteinImpactTypeFilter, calculateGnomadAlleleFrequency, download$6 as civicDownload, sortValue$8 as civicSortValue, download$4 as clinvarDownload, sortValue$3 as clinvarSortValue, download$3 as dbsnpDownload, sortValue$2 as dbsnpSortValue, fetchVariantAnnotationsByMutation, fetchVariantAnnotationsIndexedByGenomicLocation, findAllUniquePositions, findNonTextInputFilters, findOneMutationFilterValue, findTextInputFilter, getAllOptionValues, getAnnotationData, getClinvarData, getColorForProteinImpactType, getGnomadData, getHgvscColumnData, getHgvsgColumnData, getProteinImpactTypeBadgeLabel, getProteinImpactTypeOptionLabel, getSelectedOptionValues, getSignalData, getSingleSignalValue, getUrl, download$2 as gnomadDownload, sortValue$1 as gnomadSortValue, groupDataByGroupFilters, groupDataByProteinImpactType, handleOptionSelect, download$1 as hgvscDownload, sortValue as hgvscSortValue, sortValue$6 as hotspotAnnotationSortValue, includesSearchTextIgnoreCase, indexPositions, initDefaultMutationMapperStore, initDefaultTrackVisibility, initGenomeNexusClient, initGenomeNexusInternalClient, initOncoKbClient, mergeColumns, mutationTypeSort, download$5 as myCancerGenomeDownload, sortValue$7 as myCancerGenomeSortValue, onFilterOptionSelect, proteinChangeSortMethod, rightAlignedCell, download as signalDownload, getSortValue as signalSortValue, updatePositionHighlightFilters, updatePositionRangeHighlightFilters, updatePositionSelectionFilters };
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export { Annotation, AxisScale, AxisScaleSwitch, BadgeLabel, BadgeSelector, Civic, ClinvarInterpretation, ClinvarSummary, ColumnHeader, ColumnSelector, ColumnSortDirection, DEFAULT_ANNOTATION_DATA, DEFAULT_GENOME_NEXUS_URL, DEFAULT_MUTATION_ALIGNER_PROXY_URL_TEMPLATE, DEFAULT_MUTATION_ALIGNER_URL_TEMPLATE, DEFAULT_MUTATION_COLUMNS, DEFAULT_MY_GENE_URL_TEMPLATE, DEFAULT_ONCO_KB_URL, DEFAULT_PROTEIN_IMPACT_TYPE_COLORS, DEFAULT_UNIPROT_ID_URL_TEMPLATE, DataFilterType, DataTable, Dbsnp, DbsnpId, DefaultMutationMapperDataFetcher, DefaultMutationMapperDataStore, DefaultMutationMapperFilterApplier, DefaultMutationMapperStore, DefaultMutationTable, Domain, DropdownSelector, FilterResetPanel, GenericAnnotation, Gnomad, GnomadFrequency, GnomadFrequencyBreakdown, GnomadFrequencyTable, GnomadFrequencyValue, Hgvsc, Hgvsg, HotspotAnnotation, HotspotInfo, Lollipop, LollipopMutationPlot, LollipopPlot, LollipopPlotNoTooltip, LollipopTooltipCountInfo, MUTATION_COLUMNS_DEFINITION, MUTATION_COLUMN_HEADERS, MUTATION_STATUS_BADGE_STYLE_OVERRIDE, MUTATION_TYPE_PRIORITY, MutationColumn, MutationColumnName, MutationMapper, MutationStatus, MutationStatusBadgeSelector, MyCancerGenome, ONCOKB_DEFAULT_DATA, ONCOKB_DEFAULT_INFO, PercentToggle, ProteinChange, ProteinImpactTypeBadgeSelector, ProteinImpactTypeDropdownSelector, RevueCell, RevueTooltipContent, LollipopPlot as Sequence, Signal, SignalTable, TEXT_INPUT_FILTER_ID, TrackName, TrackSelector, USE_DEFAULT_PUBLIC_INSTANCE_FOR_ONCOKB, sortValue$4 as annotationSortValue, applyDataFilters, applyDataFiltersOnDatum, applyDefaultMutationFilter, applyDefaultMutationStatusFilter, applyDefaultPositionFilter, applyDefaultProteinChangeFilter, applyDefaultProteinImpactTypeFilter, calculateGnomadAlleleFrequency, download$6 as civicDownload, sortValue$8 as civicSortValue, download$4 as clinvarDownload, sortValue$3 as clinvarSortValue, download$3 as dbsnpDownload, sortValue$2 as dbsnpSortValue, fetchVariantAnnotationsByMutation, fetchVariantAnnotationsIndexedByGenomicLocation, findAllUniquePositions, findNonTextInputFilters, findOneMutationFilterValue, findTextInputFilter, getAllOptionValues, getAnnotationData, getClinvarData, getColorForProteinImpactType, getGnomadData, getHgvscColumnData, getHgvsgColumnData, getProteinImpactTypeBadgeLabel, getProteinImpactTypeOptionLabel, getSelectedOptionValues, getSignalData, getSingleSignalValue, getUrl, download$2 as gnomadDownload, sortValue$1 as gnomadSortValue, groupDataByGroupFilters, groupDataByProteinImpactType, handleOptionSelect, download$1 as hgvscDownload, sortValue as hgvscSortValue, sortValue$6 as hotspotAnnotationSortValue, includesSearchTextIgnoreCase, indexPositions, initDefaultMutationMapperStore, initDefaultTrackVisibility, initGenomeNexusClient, initGenomeNexusInternalClient, initOncoKbClient, mergeColumns, mutationTypeSort, download$5 as myCancerGenomeDownload, sortValue$7 as myCancerGenomeSortValue, onFilterOptionSelect, proteinChangeSortMethod, rightAlignedCell, download as signalDownload, getSortValue as signalSortValue, updatePositionHighlightFilters, updatePositionRangeHighlightFilters, updatePositionSelectionFilters };
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//# sourceMappingURL=index.es.js.map
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