hyphy-scope/dist/utils/absrel-plots.d.ts

Reusable Svelte components for HyPhy analysis visualization

/**
 * ABSREL plotting functions using Observable Plot
 */
import type { AbsrelBranchData, AbsrelSiteData, AbsrelResults } from './absrel-utils.js';
/**
 * Create a p-value significance plot
 */
export declare function createPValuePlot(branches: AbsrelBranchData[], threshold?: number): any;
/**
 * Create a Bayes Factor plot
 */
export declare function createBayesFactorPlot(branches: AbsrelBranchData[]): any;
/**
 * Create omega distribution plot for a specific branch
 */
export declare function createOmegaDistributionPlot(branch: AbsrelBranchData): any;
/**
 * Create site-level log likelihood plot
 */
export declare function createSiteLogLikelihoodPlot(siteData: AbsrelSiteData[], selectedBranches?: string[]): any;
/**
 * Create model comparison plot
 */
export declare function createModelComparisonPlot(results: AbsrelResults | any): any;
/**
 * Create synonymous rates bead plot
 */
export declare function createSynonymousRatesPlot(siteData: any[], startSite?: number, sitesToShow?: number, dynamicRangeCap?: number): any;
/**
 * Create support for positive selection heatmap
 */
export declare function createPositiveSelectionHeatmap(branchSiteData: any[], startSite: number | undefined, sitesToShow: number, branchOrder: string[], sizeField?: string, colorField?: string): any;
/**
 * Create evidence ratio alignment profile heatmap
 */
export declare function createEvidenceRatioProfilePlot(profileBranchSites: any[], startSite: number | undefined, sitesToShow: number, branchOrder: string[], sizeField?: string): any;
/**
 * Get plot description for a given plot type
 */
export declare function getAbsrelPlotDescription(plotType: string): string;
/**
 * Get available plot options based on data availability
 */
export declare function getAbsrelPlotOptions(srvRateClasses: number, srvDistribution: any, bsPositiveSelection: any[], profileBranchSites: any[]): Array<[string, (data: any) => boolean]>;
/**
 * Get plot specification based on plot type and data
 */
export declare function getAbsrelPlotSpec(plotType: string, resultsJson: any, fig1data: any[], bsPositiveSelection: any[], profileBranchSites: any[], branchOrder: string[], fig1Controls: string, startSite?: number, sitesToShow?: number): any;
/**
 * Calculate appropriate step size for evidence ratio plots
 */
export declare function calculateERStepSize(resultsJson: any): number;