@datagrok-libraries/bio 5.62.1 → 5.63.1

package/src/utils/cell-renderer-monomer-placer.js

@@ -8,6 +8,7 @@ import { getMonomerLibHelper } from '../types/monomer-library';
 import { errInfo } from './err-info';
 import { DrawStyle, printLeftOrCentered, TAGS as mmcrTAGS } from './cell-renderer';
 import { rendererSettingsChangedState } from './cell-renderer-consts';
+import { AnnotationRenderer } from './cell-renderer-annotations';
 import { HelmTypes } from '../helm/consts';
 import { execMonomerHoverLinks } from '../monomer-works/monomer-hover';
 import * as operators from 'rxjs/operators';
@@ -41,6 +42,11 @@ export function hitBounds(bounds, x, positionShiftPixels) {
 export class MonomerPlacer extends CellRendererBackBase {
     // width of separator symbol
     get separatorWidth() { return this.props?.fontCharWidth ? this.props?.fontCharWidth : 5; }
+    getAnnotationRenderer() {
+        if (!this._annotationRenderer)
+            this._annotationRenderer = new AnnotationRenderer(this.tableCol);
+        return this._annotationRenderer.hasAnnotations() ? this._annotationRenderer : null;
+    }
     /** View is required to subscribe and handle for data frame changes */
     constructor(gridCol, tableCol, logger, monomerLengthLimit, propsProvider) {
         super(gridCol, tableCol, logger);
@@ -56,6 +62,8 @@ export class MonomerPlacer extends CellRendererBackBase {
         this._lineHeight = 20;
         this._cellBounds = new Map();
         this.sysMonomerLib = null;
+        /** Lazily created annotation renderer — null cost when no annotations exist. */
+        this._annotationRenderer = null;
         this.padding = 5;
         this._leftThreeDotsPadding = 0;
         this.props = this.propsProvider();
@@ -426,6 +434,7 @@ export class MonomerPlacer extends CellRendererBackBase {
             })();
             const selectedPosition = Number.parseInt(tableCol.getTag(bioTAGS.selectedPosition) ?? '-200');
             const shouldUseMultiLine = this.shouldUseMultilineRendering(tableCol);
+            const annotRenderer = this.getAnnotationRenderer();
             if (shouldUseMultiLine) {
                 const currentCellBounds = [];
                 const layout = this.calculateMultiLineLayoutDynamic(g, w, h, subParts, positionShift, maxLengthOfMonomer);
@@ -464,6 +473,8 @@ export class MonomerPlacer extends CellRendererBackBase {
                             bounds: new DG.Rect(element.x, (lineY - y), element.width, layout.lineHeight),
                             sequencePosition: monomerIndex,
                         });
+                        if (annotRenderer)
+                            annotRenderer.drawPositionBackground(g, elementX, lineY, element.width + 2, layout.lineHeight, monomerIndex, gridCell.tableRowIndex);
                         printLeftOrCentered(g, monomer.om, elementX, lineY, element.width, layout.lineHeight, {
                             color: color,
                             isMultiLineContext: true,
@@ -484,6 +495,14 @@ export class MonomerPlacer extends CellRendererBackBase {
                     maxLengthWordsSum = this.getSummedMonomerLengths(this.getCellMonomerLengthsForSeqValue(value, w));
                 const minMonomerWidth = this.props.separatorWidth + 1 * this.props.fontCharWidth;
                 const visibleSeqLength = Math.min(subParts.length, Math.ceil(w / (minMonomerWidth)) + positionShift);
+                // Pre-compute text bottom y for annotation underlines (text is vertically centered)
+                let textBottomY;
+                if (annotRenderer) {
+                    const metrics = g.measureText('M');
+                    const textHeight = metrics.fontBoundingBoxAscent + metrics.fontBoundingBoxDescent;
+                    const dy = h / 2 - textHeight / 2 + 1;
+                    textBottomY = y + dy + textHeight;
+                }
                 for (let posIdx = positionShift; posIdx < visibleSeqLength; ++posIdx) {
                     const om = posIdx < subParts.length ? subParts.getOriginal(posIdx) : sh.defaultGapOriginal;
                     const cm = posIdx < subParts.length ? subParts.getCanonical(posIdx) : sh.defaultGapOriginal;
@@ -494,6 +513,15 @@ export class MonomerPlacer extends CellRendererBackBase {
                     // here, the first index of disjointSeqStarts is always 0, so we check from position 1, and also, next index
                     // will show where the next disjoint sequence starts, so we check posIdx + 1
                     const drawnSeparator = (subParts?.graphInfo?.disjointSeqStarts?.indexOf(posIdx + 1) ?? 0) > 0 ? '|' : separator;
+                    // Draw annotation background before the monomer text
+                    if (annotRenderer && gridCell.tableRowIndex != null) {
+                        const wordIdx = posIdx - positionShift;
+                        const placeX = (maxLengthWordsSum[wordIdx] ?? 0) - (maxLengthWordsSum[0] ?? 0);
+                        const nextPlaceX = wordIdx + 1 < maxLengthWordsSum.length ?
+                            (maxLengthWordsSum[wordIdx + 1] ?? 0) - (maxLengthWordsSum[0] ?? 0) : placeX + this.props.fontCharWidth;
+                        const monomerW = nextPlaceX - placeX;
+                        annotRenderer.drawPositionBackground(g, x + this.padding + this._leftThreeDotsPadding + placeX, y, monomerW, h, posIdx, gridCell.tableRowIndex, textBottomY);
+                    }
                     const opts = {
                         color: color, pivot: 0, left: true, transparencyRate: 0.0,
                         separator: drawnSeparator, last: last,
@@ -573,6 +601,20 @@ export class MonomerPlacer extends CellRendererBackBase {
                 })();
             }
             tooltipElements.push(monomerDiv);
+            // Append annotation info to tooltip
+            const annotR = this.getAnnotationRenderer();
+            if (annotR) {
+                const annotInfo = annotR.getTooltipInfo(left + positionShift, gridCell.tableRowIndex);
+                if (annotInfo.length > 0) {
+                    const sep = document.createElement('hr');
+                    sep.style.margin = '4px 0';
+                    sep.style.border = 'none';
+                    sep.style.borderTop = '1px solid #ccc';
+                    tooltipElements.push(sep);
+                    for (const line of annotInfo)
+                        tooltipElements.push(ui.divText(line, { style: { fontSize: '12px', marginBottom: '2px' } }));
+                }
+            }
             ui.tooltip.show(ui.divV(tooltipElements), e.x + 16, e.y + 16);
             execMonomerHoverLinks(gridCell, seqMonomer);
         }

package/src/utils/cell-renderer-monomer-placer.js.map

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package/src/utils/macromolecule/annotations.d.ts

@@ -0,0 +1,89 @@
+/** Sequence Annotation System — Core Types
+ *
+ * Provides structured annotation support for macromolecule columns:
+ * - Column-level annotations (regions, liabilities) stored as column tags
+ * - Row-level annotation hits stored in a hidden companion column
+ */
+/** Visual mark type */
+export declare enum AnnotationVisualType {
+    Region = "region",
+    Point = "point",
+    Motif = "motif"
+}
+/** Grouping category */
+export declare enum AnnotationCategory {
+    Structure = "structure",
+    Liability = "liability",
+    PTM = "ptm",
+    Custom = "custom"
+}
+/** Severity for liabilities */
+export declare enum LiabilitySeverity {
+    High = "high",
+    Medium = "medium",
+    Low = "low",
+    Info = "info"
+}
+/**
+ * A single annotation definition attached to a column.
+ * Extends the existing SeqRegion concept with visual/categorical metadata.
+ */
+export interface SeqAnnotation {
+    /** Unique within column */
+    id: string;
+    /** Display name, e.g. "CDR1", "Deamidation (NG)" */
+    name: string;
+    description?: string;
+    /** Start position name (null for row-level-only) */
+    start: string | null;
+    /** End position name (null for point/row-level) */
+    end: string | null;
+    visualType: AnnotationVisualType;
+    category: AnnotationCategory;
+    /** CSS color; defaults derived from category */
+    color?: string;
+    severity?: LiabilitySeverity;
+    /** Regex pattern for liability scanning */
+    motifPattern?: string;
+    /** "IMGT", "Kabat", etc. */
+    sourceScheme?: string;
+    /** True if created by an automated process (numbering, scanning) */
+    autoGenerated?: boolean;
+}
+/** A single hit found in a specific row */
+export interface SeqAnnotationHit {
+    /** References SeqAnnotation.id */
+    annotationId: string;
+    /** 0-based index in the row's sequence */
+    positionIndex: number;
+    /** End index (inclusive) for range-based hits (e.g. region spans).
+     *  When set, the hit covers positionIndex..endPositionIndex.
+     *  Unset for point/motif liability hits. */
+    endPositionIndex?: number;
+    /** Position name from positionNames (for display) */
+    positionName?: string;
+    /** The actual residues matched */
+    matchedMonomers: string;
+    score?: number;
+}
+/** Stored per-row as JSON array in the companion annotation column */
+export type RowAnnotationData = SeqAnnotationHit[];
+/** Default colors for annotation categories */
+export declare const ANNOTATION_COLORS: {
+    readonly structure: {
+        readonly FR: readonly ["#0095ff", "#289dfd", "#48adff", "#3ba5fc"];
+        readonly CDR: readonly ["#ffdca3", "#facb83", "#f7a224"];
+    };
+    readonly liability: {
+        readonly deamidation: "#E53935";
+        readonly isomerization: "#FF9800";
+        readonly oxidation: "#9C27B0";
+        readonly glycosylation: "#4CAF50";
+        readonly freeCysteine: "#607D8B";
+    };
+};
+/** Background opacity for region overlays in the cell renderer */
+export declare const REGION_BG_OPACITY = 0.25;
+/** Underline height in pixels for liability markers */
+export declare const LIABILITY_UNDERLINE_HEIGHT = 3;
+//# sourceMappingURL=annotations.d.ts.map

package/src/utils/macromolecule/annotations.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"annotations.d.ts","sourceRoot":"","sources":["annotations.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,uBAAuB;AACvB,oBAAY,oBAAoB;IAC9B,MAAM,WAAW;IACjB,KAAK,UAAU;IACf,KAAK,UAAU;CAChB;AAED,wBAAwB;AACxB,oBAAY,kBAAkB;IAC5B,SAAS,cAAc;IACvB,SAAS,cAAc;IACvB,GAAG,QAAQ;IACX,MAAM,WAAW;CAClB;AAED,+BAA+B;AAC/B,oBAAY,iBAAiB;IAC3B,IAAI,SAAS;IACb,MAAM,WAAW;IACjB,GAAG,QAAQ;IACX,IAAI,SAAS;CACd;AAED;;;GAGG;AACH,MAAM,WAAW,aAAa;IAC5B,2BAA2B;IAC3B,EAAE,EAAE,MAAM,CAAC;IACX,oDAAoD;IACpD,IAAI,EAAE,MAAM,CAAC;IACb,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,oDAAoD;IACpD,KAAK,EAAE,MAAM,GAAG,IAAI,CAAC;IACrB,mDAAmD;IACnD,GAAG,EAAE,MAAM,GAAG,IAAI,CAAC;IACnB,UAAU,EAAE,oBAAoB,CAAC;IACjC,QAAQ,EAAE,kBAAkB,CAAC;IAC7B,gDAAgD;IAChD,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,QAAQ,CAAC,EAAE,iBAAiB,CAAC;IAC7B,2CAA2C;IAC3C,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,4BAA4B;IAC5B,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,oEAAoE;IACpE,aAAa,CAAC,EAAE,OAAO,CAAC;CACzB;AAED,2CAA2C;AAC3C,MAAM,WAAW,gBAAgB;IAC/B,kCAAkC;IAClC,YAAY,EAAE,MAAM,CAAC;IACrB,0CAA0C;IAC1C,aAAa,EAAE,MAAM,CAAC;IACtB;;gDAE4C;IAC5C,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,qDAAqD;IACrD,YAAY,CAAC,EAAE,MAAM,CAAC;IACtB,kCAAkC;IAClC,eAAe,EAAE,MAAM,CAAC;IACxB,KAAK,CAAC,EAAE,MAAM,CAAC;CAChB;AAED,sEAAsE;AACtE,MAAM,MAAM,iBAAiB,GAAG,gBAAgB,EAAE,CAAC;AAEnD,+CAA+C;AAC/C,eAAO,MAAM,iBAAiB;;;;;;;;;;;;CAYpB,CAAC;AAEX,kEAAkE;AAClE,eAAO,MAAM,iBAAiB,OAAO,CAAC;AAEtC,uDAAuD;AACvD,eAAO,MAAM,0BAA0B,IAAI,CAAC"}

package/src/utils/macromolecule/annotations.js

@@ -0,0 +1,48 @@
+/** Sequence Annotation System — Core Types
+ *
+ * Provides structured annotation support for macromolecule columns:
+ * - Column-level annotations (regions, liabilities) stored as column tags
+ * - Row-level annotation hits stored in a hidden companion column
+ */
+/** Visual mark type */
+export var AnnotationVisualType;
+(function (AnnotationVisualType) {
+    AnnotationVisualType["Region"] = "region";
+    AnnotationVisualType["Point"] = "point";
+    AnnotationVisualType["Motif"] = "motif";
+})(AnnotationVisualType || (AnnotationVisualType = {}));
+/** Grouping category */
+export var AnnotationCategory;
+(function (AnnotationCategory) {
+    AnnotationCategory["Structure"] = "structure";
+    AnnotationCategory["Liability"] = "liability";
+    AnnotationCategory["PTM"] = "ptm";
+    AnnotationCategory["Custom"] = "custom";
+})(AnnotationCategory || (AnnotationCategory = {}));
+/** Severity for liabilities */
+export var LiabilitySeverity;
+(function (LiabilitySeverity) {
+    LiabilitySeverity["High"] = "high";
+    LiabilitySeverity["Medium"] = "medium";
+    LiabilitySeverity["Low"] = "low";
+    LiabilitySeverity["Info"] = "info";
+})(LiabilitySeverity || (LiabilitySeverity = {}));
+/** Default colors for annotation categories */
+export const ANNOTATION_COLORS = {
+    structure: {
+        FR: ['#0095ff', '#289dfd', '#48adff', '#3ba5fc'],
+        CDR: ['#ffdca3', '#facb83', '#f7a224'],
+    },
+    liability: {
+        deamidation: '#E53935',
+        isomerization: '#FF9800',
+        oxidation: '#9C27B0',
+        glycosylation: '#4CAF50',
+        freeCysteine: '#607D8B',
+    },
+};
+/** Background opacity for region overlays in the cell renderer */
+export const REGION_BG_OPACITY = 0.25;
+/** Underline height in pixels for liability markers */
+export const LIABILITY_UNDERLINE_HEIGHT = 3;
+//# sourceMappingURL=annotations.js.map

package/src/utils/macromolecule/annotations.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"annotations.js","sourceRoot":"","sources":["annotations.ts"],"names":[],"mappings":"AAAA;;;;;GAKG;AAEH,uBAAuB;AACvB,MAAM,CAAN,IAAY,oBAIX;AAJD,WAAY,oBAAoB;IAC9B,yCAAiB,CAAA;IACjB,uCAAe,CAAA;IACf,uCAAe,CAAA;AACjB,CAAC,EAJW,oBAAoB,KAApB,oBAAoB,QAI/B;AAED,wBAAwB;AACxB,MAAM,CAAN,IAAY,kBAKX;AALD,WAAY,kBAAkB;IAC5B,6CAAuB,CAAA;IACvB,6CAAuB,CAAA;IACvB,iCAAW,CAAA;IACX,uCAAiB,CAAA;AACnB,CAAC,EALW,kBAAkB,KAAlB,kBAAkB,QAK7B;AAED,+BAA+B;AAC/B,MAAM,CAAN,IAAY,iBAKX;AALD,WAAY,iBAAiB;IAC3B,kCAAa,CAAA;IACb,sCAAiB,CAAA;IACjB,gCAAW,CAAA;IACX,kCAAa,CAAA;AACf,CAAC,EALW,iBAAiB,KAAjB,iBAAiB,QAK5B;AAiDD,+CAA+C;AAC/C,MAAM,CAAC,MAAM,iBAAiB,GAAG;IAC/B,SAAS,EAAE;QACT,EAAE,EAAE,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;QAChD,GAAG,EAAE,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;KACvC;IACD,SAAS,EAAE;QACT,WAAW,EAAE,SAAS;QACtB,aAAa,EAAE,SAAS;QACxB,SAAS,EAAE,SAAS;QACpB,aAAa,EAAE,SAAS;QACxB,YAAY,EAAE,SAAS;KACxB;CACO,CAAC;AAEX,kEAAkE;AAClE,MAAM,CAAC,MAAM,iBAAiB,GAAG,IAAI,CAAC;AAEtC,uDAAuD;AACvD,MAAM,CAAC,MAAM,0BAA0B,GAAG,CAAC,CAAC"}

package/src/utils/macromolecule/consts.d.ts

@@ -30,7 +30,10 @@ export declare enum TAGS {
     regions = ".regions",
     positionShift = ".positionShift",
     selectedPosition = ".selectedPosition",
-    polymerTypeColumnName = ".polymerTypeColumnName"
+    polymerTypeColumnName = ".polymerTypeColumnName",
+    annotations = ".annotations",
+    numberingScheme = ".numberingScheme",
+    annotationColumnName = ".annotationColumnName"
 }
 export { TAGS as BioTags };
 export declare const positionSeparator: string;

package/src/utils/macromolecule/consts.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"consts.d.ts","sourceRoot":"","sources":["consts.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,aAAa,EAAC,MAAM,SAAS,CAAC;AAEtC,0EAA0E;AAC1E,oBAAY,QAAQ;IAClB,KAAK,UAAU;IACf,SAAS,cAAc;IACvB,IAAI,SAAS;IACmB,MAAM,WAAW;IACjB,IAAI,SAAS;CAC9C;AAED,0BAAkB,SAAS;IACzB,OAAO,YAAY;IACnB,GAAG,QAAQ;CACZ;AAED,oBAAY,QAAQ;IAClB,GAAG,QAAQ;IACX,GAAG,QAAQ;IACX,EAAE,OAAO;IACT,cAAc;IACd,EAAE,OAAO;CACV;AAED,oBAAY,IAAI;IACd,OAAO,YAAY;IACnB,QAAQ,aAAa;IACrB,YAAY,kBAAkB;IAC9B,mBAAmB,yBAAyB;IAC5C,SAAS,cAAc;IACvB,gBAAgB,sBAAsB;IACtC,aAAa,mBAAmB;IAChC,cAAc,oBAAoB;IAClC,OAAO,aAAa;IACpB,aAAa,mBAAmB;IAChC,gBAAgB,sBAAsB;IACtC,qBAAqB,2BAA2B;IAChD,WAAW,iBAAiB;IAC5B,eAAe,qBAAqB;IACpC,oBAAoB,0BAA0B;CAC/C;AAED,OAAO,EAAC,IAAI,IAAI,OAAO,EAAC,CAAC;AAEzB,eAAO,MAAM,iBAAiB,EAAE,MAAa,CAAC;AAE9C,eAAO,MAAM,SAAS,EAAE,MAAqD,CAAC;AAE9E,eAAO,MAAM,MAAM,EAAE,MAA0C,CAAC;AAChE,eAAO,MAAM,SAAS,EAAE,MAAyB,CAAC;AAElD,eAAO,MAAM,SAAS;;;;;;CASnB,CAAC;AAEJ,eAAO,MAAM,kBAAkB,EAAE,aAAa,EAI7C,CAAC;AAEF,2BAA2B;AAC3B,eAAO,MAAM,UAAU,EAAE,MAAoB,CAAC;AAE9C,eAAO,MAAM,YAAY,EAAE;IACzB,CAAC,KAAK,EAAE,MAAM,GAAG,MAAM,CAAA;CAMxB,CAAC;AAEF,eAAO,MAAM,sBAAsB,QAAQ,CAAC;AAC5C,eAAO,MAAM,kCAAkC,gCAAgC,CAAC"}

package/src/utils/macromolecule/consts.js

@@ -30,6 +30,9 @@ export var TAGS;
     TAGS["positionShift"] = ".positionShift";
     TAGS["selectedPosition"] = ".selectedPosition";
     TAGS["polymerTypeColumnName"] = ".polymerTypeColumnName";
+    TAGS["annotations"] = ".annotations";
+    TAGS["numberingScheme"] = ".numberingScheme";
+    TAGS["annotationColumnName"] = ".annotationColumnName";
 })(TAGS || (TAGS = {}));
 export { TAGS as BioTags };
 export const positionSeparator = ', ';

package/src/utils/macromolecule/consts.js.map

@@ -1 +1 @@
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package/src/utils/macromolecule/numbering-schemes.d.ts

@@ -0,0 +1,37 @@
+/** Static antibody numbering scheme region definitions.
+ *
+ * Contains FR/CDR boundaries for IMGT, Kabat, Chothia, and AHo schemes.
+ * These are the canonical position ranges used after a numbering tool
+ * (e.g. ANARCI) has assigned scheme-specific position names.
+ */
+export declare enum NumberingScheme {
+    IMGT = "IMGT",
+    Kabat = "Kabat",
+    Chothia = "Chothia",
+    AHo = "AHo"
+}
+export declare enum ChainType {
+    Heavy = "Heavy",
+    Light_Kappa = "Light_Kappa",
+    Light_Lambda = "Light_Lambda"
+}
+export interface SchemeRegionDef {
+    name: string;
+    type: 'FR' | 'CDR';
+    startPosition: string;
+    endPosition: string;
+    chainType: ChainType;
+}
+/** IMGT region boundaries — the reference numbering scheme.
+ * @see https://www.imgt.org/IMGTScientificChart/Numbering/IMGTIGVLsuperfamily.html
+ */
+export declare const IMGT_REGIONS: Record<ChainType, SchemeRegionDef[]>;
+/** Kabat region boundaries (differ mainly in CDR definitions). */
+export declare const KABAT_REGIONS: Record<ChainType, SchemeRegionDef[]>;
+/** Chothia region boundaries. */
+export declare const CHOTHIA_REGIONS: Record<ChainType, SchemeRegionDef[]>;
+/** AHo region boundaries. */
+export declare const AHO_REGIONS: Record<ChainType, SchemeRegionDef[]>;
+/** Lookup table: scheme → chain type → region defs */
+export declare const SCHEME_REGIONS: Record<NumberingScheme, Record<ChainType, SchemeRegionDef[]>>;
+//# sourceMappingURL=numbering-schemes.d.ts.map

package/src/utils/macromolecule/numbering-schemes.d.ts.map

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package/src/utils/macromolecule/numbering-schemes.js

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+/** Static antibody numbering scheme region definitions.
+ *
+ * Contains FR/CDR boundaries for IMGT, Kabat, Chothia, and AHo schemes.
+ * These are the canonical position ranges used after a numbering tool
+ * (e.g. ANARCI) has assigned scheme-specific position names.
+ */
+export var NumberingScheme;
+(function (NumberingScheme) {
+    NumberingScheme["IMGT"] = "IMGT";
+    NumberingScheme["Kabat"] = "Kabat";
+    NumberingScheme["Chothia"] = "Chothia";
+    NumberingScheme["AHo"] = "AHo";
+})(NumberingScheme || (NumberingScheme = {}));
+export var ChainType;
+(function (ChainType) {
+    ChainType["Heavy"] = "Heavy";
+    ChainType["Light_Kappa"] = "Light_Kappa";
+    ChainType["Light_Lambda"] = "Light_Lambda";
+})(ChainType || (ChainType = {}));
+/** IMGT region boundaries — the reference numbering scheme.
+ * @see https://www.imgt.org/IMGTScientificChart/Numbering/IMGTIGVLsuperfamily.html
+ */
+export const IMGT_REGIONS = {
+    [ChainType.Heavy]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '26', chainType: ChainType.Heavy },
+        { name: 'CDR1', type: 'CDR', startPosition: '27', endPosition: '38', chainType: ChainType.Heavy },
+        { name: 'FR2', type: 'FR', startPosition: '39', endPosition: '55', chainType: ChainType.Heavy },
+        { name: 'CDR2', type: 'CDR', startPosition: '56', endPosition: '65', chainType: ChainType.Heavy },
+        { name: 'FR3', type: 'FR', startPosition: '66', endPosition: '104', chainType: ChainType.Heavy },
+        { name: 'CDR3', type: 'CDR', startPosition: '105', endPosition: '117', chainType: ChainType.Heavy },
+        { name: 'FR4', type: 'FR', startPosition: '118', endPosition: '128', chainType: ChainType.Heavy },
+    ],
+    [ChainType.Light_Kappa]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '26', chainType: ChainType.Light_Kappa },
+        { name: 'CDR1', type: 'CDR', startPosition: '27', endPosition: '38', chainType: ChainType.Light_Kappa },
+        { name: 'FR2', type: 'FR', startPosition: '39', endPosition: '55', chainType: ChainType.Light_Kappa },
+        { name: 'CDR2', type: 'CDR', startPosition: '56', endPosition: '65', chainType: ChainType.Light_Kappa },
+        { name: 'FR3', type: 'FR', startPosition: '66', endPosition: '104', chainType: ChainType.Light_Kappa },
+        { name: 'CDR3', type: 'CDR', startPosition: '105', endPosition: '117', chainType: ChainType.Light_Kappa },
+        { name: 'FR4', type: 'FR', startPosition: '118', endPosition: '127', chainType: ChainType.Light_Kappa },
+    ],
+    [ChainType.Light_Lambda]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '26', chainType: ChainType.Light_Lambda },
+        { name: 'CDR1', type: 'CDR', startPosition: '27', endPosition: '38', chainType: ChainType.Light_Lambda },
+        { name: 'FR2', type: 'FR', startPosition: '39', endPosition: '55', chainType: ChainType.Light_Lambda },
+        { name: 'CDR2', type: 'CDR', startPosition: '56', endPosition: '65', chainType: ChainType.Light_Lambda },
+        { name: 'FR3', type: 'FR', startPosition: '66', endPosition: '104', chainType: ChainType.Light_Lambda },
+        { name: 'CDR3', type: 'CDR', startPosition: '105', endPosition: '117', chainType: ChainType.Light_Lambda },
+        { name: 'FR4', type: 'FR', startPosition: '118', endPosition: '127', chainType: ChainType.Light_Lambda },
+    ],
+};
+/** Kabat region boundaries (differ mainly in CDR definitions). */
+export const KABAT_REGIONS = {
+    [ChainType.Heavy]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '30', chainType: ChainType.Heavy },
+        { name: 'CDR1', type: 'CDR', startPosition: '31', endPosition: '35', chainType: ChainType.Heavy },
+        { name: 'FR2', type: 'FR', startPosition: '36', endPosition: '49', chainType: ChainType.Heavy },
+        { name: 'CDR2', type: 'CDR', startPosition: '50', endPosition: '65', chainType: ChainType.Heavy },
+        { name: 'FR3', type: 'FR', startPosition: '66', endPosition: '94', chainType: ChainType.Heavy },
+        { name: 'CDR3', type: 'CDR', startPosition: '95', endPosition: '102', chainType: ChainType.Heavy },
+        { name: 'FR4', type: 'FR', startPosition: '103', endPosition: '113', chainType: ChainType.Heavy },
+    ],
+    [ChainType.Light_Kappa]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '23', chainType: ChainType.Light_Kappa },
+        { name: 'CDR1', type: 'CDR', startPosition: '24', endPosition: '34', chainType: ChainType.Light_Kappa },
+        { name: 'FR2', type: 'FR', startPosition: '35', endPosition: '49', chainType: ChainType.Light_Kappa },
+        { name: 'CDR2', type: 'CDR', startPosition: '50', endPosition: '56', chainType: ChainType.Light_Kappa },
+        { name: 'FR3', type: 'FR', startPosition: '57', endPosition: '88', chainType: ChainType.Light_Kappa },
+        { name: 'CDR3', type: 'CDR', startPosition: '89', endPosition: '97', chainType: ChainType.Light_Kappa },
+        { name: 'FR4', type: 'FR', startPosition: '98', endPosition: '107', chainType: ChainType.Light_Kappa },
+    ],
+    [ChainType.Light_Lambda]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '23', chainType: ChainType.Light_Lambda },
+        { name: 'CDR1', type: 'CDR', startPosition: '24', endPosition: '34', chainType: ChainType.Light_Lambda },
+        { name: 'FR2', type: 'FR', startPosition: '35', endPosition: '49', chainType: ChainType.Light_Lambda },
+        { name: 'CDR2', type: 'CDR', startPosition: '50', endPosition: '56', chainType: ChainType.Light_Lambda },
+        { name: 'FR3', type: 'FR', startPosition: '57', endPosition: '88', chainType: ChainType.Light_Lambda },
+        { name: 'CDR3', type: 'CDR', startPosition: '89', endPosition: '97', chainType: ChainType.Light_Lambda },
+        { name: 'FR4', type: 'FR', startPosition: '98', endPosition: '107', chainType: ChainType.Light_Lambda },
+    ],
+};
+/** Chothia region boundaries. */
+export const CHOTHIA_REGIONS = {
+    [ChainType.Heavy]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '25', chainType: ChainType.Heavy },
+        { name: 'CDR1', type: 'CDR', startPosition: '26', endPosition: '32', chainType: ChainType.Heavy },
+        { name: 'FR2', type: 'FR', startPosition: '33', endPosition: '51', chainType: ChainType.Heavy },
+        { name: 'CDR2', type: 'CDR', startPosition: '52', endPosition: '56', chainType: ChainType.Heavy },
+        { name: 'FR3', type: 'FR', startPosition: '57', endPosition: '94', chainType: ChainType.Heavy },
+        { name: 'CDR3', type: 'CDR', startPosition: '95', endPosition: '102', chainType: ChainType.Heavy },
+        { name: 'FR4', type: 'FR', startPosition: '103', endPosition: '113', chainType: ChainType.Heavy },
+    ],
+    [ChainType.Light_Kappa]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '25', chainType: ChainType.Light_Kappa },
+        { name: 'CDR1', type: 'CDR', startPosition: '26', endPosition: '32', chainType: ChainType.Light_Kappa },
+        { name: 'FR2', type: 'FR', startPosition: '33', endPosition: '49', chainType: ChainType.Light_Kappa },
+        { name: 'CDR2', type: 'CDR', startPosition: '50', endPosition: '52', chainType: ChainType.Light_Kappa },
+        { name: 'FR3', type: 'FR', startPosition: '53', endPosition: '90', chainType: ChainType.Light_Kappa },
+        { name: 'CDR3', type: 'CDR', startPosition: '91', endPosition: '96', chainType: ChainType.Light_Kappa },
+        { name: 'FR4', type: 'FR', startPosition: '97', endPosition: '107', chainType: ChainType.Light_Kappa },
+    ],
+    [ChainType.Light_Lambda]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '25', chainType: ChainType.Light_Lambda },
+        { name: 'CDR1', type: 'CDR', startPosition: '26', endPosition: '32', chainType: ChainType.Light_Lambda },
+        { name: 'FR2', type: 'FR', startPosition: '33', endPosition: '49', chainType: ChainType.Light_Lambda },
+        { name: 'CDR2', type: 'CDR', startPosition: '50', endPosition: '52', chainType: ChainType.Light_Lambda },
+        { name: 'FR3', type: 'FR', startPosition: '53', endPosition: '90', chainType: ChainType.Light_Lambda },
+        { name: 'CDR3', type: 'CDR', startPosition: '91', endPosition: '96', chainType: ChainType.Light_Lambda },
+        { name: 'FR4', type: 'FR', startPosition: '97', endPosition: '107', chainType: ChainType.Light_Lambda },
+    ],
+};
+/** AHo region boundaries. */
+export const AHO_REGIONS = {
+    [ChainType.Heavy]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '24', chainType: ChainType.Heavy },
+        { name: 'CDR1', type: 'CDR', startPosition: '25', endPosition: '40', chainType: ChainType.Heavy },
+        { name: 'FR2', type: 'FR', startPosition: '41', endPosition: '55', chainType: ChainType.Heavy },
+        { name: 'CDR2', type: 'CDR', startPosition: '56', endPosition: '78', chainType: ChainType.Heavy },
+        { name: 'FR3', type: 'FR', startPosition: '79', endPosition: '108', chainType: ChainType.Heavy },
+        { name: 'CDR3', type: 'CDR', startPosition: '109', endPosition: '138', chainType: ChainType.Heavy },
+        { name: 'FR4', type: 'FR', startPosition: '139', endPosition: '149', chainType: ChainType.Heavy },
+    ],
+    [ChainType.Light_Kappa]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '24', chainType: ChainType.Light_Kappa },
+        { name: 'CDR1', type: 'CDR', startPosition: '25', endPosition: '40', chainType: ChainType.Light_Kappa },
+        { name: 'FR2', type: 'FR', startPosition: '41', endPosition: '55', chainType: ChainType.Light_Kappa },
+        { name: 'CDR2', type: 'CDR', startPosition: '56', endPosition: '78', chainType: ChainType.Light_Kappa },
+        { name: 'FR3', type: 'FR', startPosition: '79', endPosition: '108', chainType: ChainType.Light_Kappa },
+        { name: 'CDR3', type: 'CDR', startPosition: '109', endPosition: '138', chainType: ChainType.Light_Kappa },
+        { name: 'FR4', type: 'FR', startPosition: '139', endPosition: '149', chainType: ChainType.Light_Kappa },
+    ],
+    [ChainType.Light_Lambda]: [
+        { name: 'FR1', type: 'FR', startPosition: '1', endPosition: '24', chainType: ChainType.Light_Lambda },
+        { name: 'CDR1', type: 'CDR', startPosition: '25', endPosition: '40', chainType: ChainType.Light_Lambda },
+        { name: 'FR2', type: 'FR', startPosition: '41', endPosition: '55', chainType: ChainType.Light_Lambda },
+        { name: 'CDR2', type: 'CDR', startPosition: '56', endPosition: '78', chainType: ChainType.Light_Lambda },
+        { name: 'FR3', type: 'FR', startPosition: '79', endPosition: '108', chainType: ChainType.Light_Lambda },
+        { name: 'CDR3', type: 'CDR', startPosition: '109', endPosition: '138', chainType: ChainType.Light_Lambda },
+        { name: 'FR4', type: 'FR', startPosition: '139', endPosition: '149', chainType: ChainType.Light_Lambda },
+    ],
+};
+/** Lookup table: scheme → chain type → region defs */
+export const SCHEME_REGIONS = {
+    [NumberingScheme.IMGT]: IMGT_REGIONS,
+    [NumberingScheme.Kabat]: KABAT_REGIONS,
+    [NumberingScheme.Chothia]: CHOTHIA_REGIONS,
+    [NumberingScheme.AHo]: AHO_REGIONS,
+};
+//# sourceMappingURL=numbering-schemes.js.map