@weng-lab/genomebrowser 0.0.19 → 0.0.21

package/dist/components/context/browserContext.d.ts

@@ -3,6 +3,7 @@ import { TrackProps } from '../tracks/types';
 import { TranscriptOptions } from '../tracks/transcripts/transcript';
 import { BigWigOptions } from '../tracks/bigwig/bigwig';
 import { BigBedOptions } from '../tracks/bigbed/bigbed';
+import { LDOptions } from '../tracks/ld/ld';
 export declare const BrowserStateContext: import('react').Context<BrowserState>;
 export declare const BrowserDispatchContext: import('react').Context<import('react').Dispatch<BrowserAction>>;
 export type Highlight = {
@@ -136,7 +137,7 @@ export type SetRange = {
 export type UpdateProps = {
     type: BrowserActionType.UPDATE_PROPS;
     id: string;
-    props: TranscriptOptions | BigWigOptions | BigBedOptions;
+    props: TranscriptOptions | BigWigOptions | BigBedOptions | LDOptions;
 };
 export type BringToTop = {
     type: BrowserActionType.BRING_TO_TOP;

package/dist/components/tracks/ld/index.d.ts

@@ -1,4 +1,4 @@
-import { default as LDTrack } from './ldtrack';
-import { default as GraphQLLDTrack } from './graphqlldtrack';
-import { LDTrackProps, LDData, GraphQLLDTrackProps } from './types';
-export { LDTrack, GraphQLLDTrack, type LDTrackProps, type LDData, type GraphQLLDTrackProps };
+import { default as LD, LDProps, LDOptions, DefaultLD } from './ld';
+export { LD };
+export type { LDProps, LDOptions };
+export { DefaultLD };

package/dist/components/tracks/ld/ld.d.ts

@@ -0,0 +1,33 @@
+import { LDData, SNP } from './types';
+import { DisplayMode } from '../types';
+import { Domain } from '../../../utils/types';
+export type LDProps = {
+    data: LDData;
+    width: number;
+    height: number;
+    id?: string;
+    displayMode: DisplayMode;
+    canDrag?: boolean;
+    domain: Domain;
+};
+export type LDOptions = {
+    transform?: string;
+    color?: string;
+    anchor?: string;
+    onVariantClick?: (snp: SNP) => void;
+    onVariantMouseOver?: (snp: SNP) => void;
+    onVariantMouseOut?: (snp: SNP) => void;
+    highlighted?: Set<string>;
+    highlightColor?: string;
+    ldThreshold?: number;
+    svgRef?: React.RefObject<SVGSVGElement>;
+    onHeightChanged?: (height: number) => void;
+    className?: string;
+};
+export declare const DefaultLD: {
+    titleSize: number;
+    ldThreshold: number;
+    displayMode: DisplayMode;
+    canDrag: boolean;
+};
+export default function LD(props: LDProps & LDOptions): import("react/jsx-runtime").JSX.Element;

package/dist/components/tracks/ld/types.d.ts

@@ -5,7 +5,7 @@ export type RenderedSNPs = {
 };
 export type LDData = {
     snps: SNP[];
-    ld?: LD[];
+    ld?: Linkage[];
 };
 export type LDTrackProps = {
     data?: LDData;
@@ -25,6 +25,7 @@ export type LDTrackProps = {
     svgRef?: React.RefObject<SVGSVGElement>;
     onHeightChanged?: (height: number) => void;
     className?: string;
+    canDrag?: boolean;
 };
 export interface SNP {
     domain: Domain;
@@ -36,7 +37,7 @@ export type RenderedSNP = {
     color: string;
     taller: boolean;
 };
-export type LD = {
+export type Linkage = {
     rSquared: number;
     coordinates: Domain;
 };
@@ -58,9 +59,18 @@ export type GraphQLLDTrackProps = {
 };
 export type GraphQLLdTrackState = {
     snps?: SNP[];
-    ld?: LD[];
+    ld?: Linkage[];
 };
 export type Population = {
     population: string;
     subpopulation?: string;
 };
+export declare const POPULATIONS: {
+    text: string;
+    value: string;
+}[];
+export declare const SUBPOPULATIONS: Map<string, ({
+    text: string;
+    value: string;
+} | null)[]>;
+export declare const ALL_POPULATIONS: Population[];

package/dist/components/tracks/ld/utils.d.ts

@@ -1,3 +1,3 @@
-import { SNP, RenderedSNPs, Path, LD } from './types';
+import { SNP, RenderedSNPs, Path, Linkage } from './types';
 export declare function renderSNPs(snps: SNP[], highlighted: Set<string>, x: (value: number) => number, hColor: string, color: string): RenderedSNPs;
-export declare function renderLD(coords: Map<string, number>, anchor: string, ld: LD[], x: (value: number) => number, ldThreshold: number, height: number): Path[];
+export declare function renderLD(coords: Map<string, number>, anchor: string, ld: Linkage[], x: (value: number) => number, ldThreshold: number, height: number): Path[];

package/dist/components/tracks/types.d.ts

@@ -6,6 +6,7 @@ import { ImportanceTrackAnnotation, ImportanceTrackDataPoint } from './importanc
 import { Rect as MotifRect } from './motif/types';
 import { MotifOptions } from './motif/motif';
 import { ImportanceOptions } from './importance/importance';
+import { LDOptions } from './ld/ld';
 /**
  * Display modes for tracks
  */
@@ -104,4 +105,8 @@ export type MotifTrackProps = {
     rowHeight?: number;
     props?: MotifOptions;
 } & BaseTrack;
-export type TrackProps = BigWigTrackProps | BigBedTrackProps | TranscriptTrackProps | MotifTrackProps | ImportanceTrackProps;
+export type LDTrackProps = {
+    assembly: string;
+    props?: LDOptions;
+} & BaseTrack;
+export type TrackProps = BigWigTrackProps | BigBedTrackProps | TranscriptTrackProps | MotifTrackProps | ImportanceTrackProps | LDTrackProps;