agentdb 2.0.0-alpha.2 → 2.0.0-alpha.2.1

package/dist/malp/index.d.ts.map

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package/dist/malp/index.js

@@ -1,37 +0,0 @@
-/**
- * MALP - Maximum Agreement Linear Predictor
- *
- * A regression library that maximizes the Concordance Correlation Coefficient (CCC)
- * instead of minimizing squared error. Optimized for measurement validation,
- * method comparison, and scenarios requiring high agreement between predictions
- * and observations.
- *
- * @module malp
- *
- * @example
- * ```typescript
- * import { MALPRegressor, compareMALPvsOLS } from 'agentdb/malp';
- *
- * // Fit MALP model
- * const model = new MALPRegressor();
- * model.fit(X, y);
- * const predictions = model.predict(X);
- * const cccScore = model.score(X, y);
- *
- * // Compare with OLS
- * const comparison = compareMALPvsOLS(X_train, y_train, X_test, y_test);
- * console.log(comparison.summary);
- * ```
- */
-// Core functionality
-export { createMatrix, createVector, matVecMultiply, matMatMultiply, transpose, leastSquares, mean, std, variance, covariance, pearsonCorr, dot, norm, vectorAdd, vectorSubtract, scalarMultiply, addIntercept, EPSILON } from './core/linalg';
-export { computeCCC, computeCCCGradient, computeCCCHessianDiagonal, cccLoss, interpretCCC, validateCCC } from './core/ccc';
-export { GradientAscentOptimizer, optimizeMALP, DEFAULT_OPTIMIZER_CONFIG } from './core/optimizer';
-// Models
-export { MALPRegressor, fitMALP, crossValidateMALP, DEFAULT_MALP_CONFIG } from './models/regressor';
-// Metrics
-export { computeAgreementMetrics, blandAltmanAnalysis, computePrecisionMetrics, computeBiasMetrics, isAgreementAcceptable, generateAgreementReport } from './metrics/agreement';
-export { OLSRegressor, computeRegressionMetrics, compareMALPvsOLS, crossValidateComparison } from './metrics/comparison';
-// Version info
-export const MALP_VERSION = '1.0.0';
-//# sourceMappingURL=index.js.map

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package/dist/malp/metrics/agreement.d.ts

@@ -1,106 +0,0 @@
-/**
- * Agreement Metrics for Method Comparison
- *
- * Provides comprehensive metrics for assessing agreement between two measurement methods,
- * with focus on CCC and related statistics.
- */
-import { Vector } from '../core/linalg';
-import { CCCComponents } from '../core/ccc';
-/**
- * Complete agreement metrics suite
- */
-export interface AgreementMetrics {
-    /** Concordance Correlation Coefficient */
-    ccc: number;
-    /** CCC interpretation */
-    cccInterpretation: string;
-    /** Pearson correlation coefficient */
-    pearsonCorr: number;
-    /** Mean difference (bias) */
-    meanDifference: number;
-    /** Standard deviation of differences */
-    sdDifference: number;
-    /** 95% Limits of Agreement (Bland-Altman) */
-    limitsOfAgreement: [number, number];
-    /** Mean of the two methods */
-    overallMean: number;
-    /** Coefficient of variation */
-    coefficientOfVariation: number;
-    /** Total Deviation Index (TDI) at 90% coverage */
-    tdi90: number;
-    /** Coverage Probability (CP) */
-    coverageProbability: number;
-    /** CCC components breakdown */
-    cccComponents: CCCComponents;
-}
-/**
- * Bland-Altman analysis results
- */
-export interface BlandAltmanAnalysis {
-    /** Mean difference (bias) */
-    meanDifference: number;
-    /** Standard deviation of differences */
-    sdDifference: number;
-    /** Lower limit of agreement (mean - 1.96*SD) */
-    lowerLimit: number;
-    /** Upper limit of agreement (mean + 1.96*SD) */
-    upperLimit: number;
-    /** Differences vector */
-    differences: number[];
-    /** Means vector */
-    means: number[];
-    /** Whether differences are within acceptable range */
-    withinLimits: boolean[];
-}
-/**
- * Compute comprehensive agreement metrics
- *
- * @param x - First method (reference/gold standard)
- * @param y - Second method (new/test method)
- * @param acceptableLimit - Optional acceptable difference limit
- * @returns Complete set of agreement metrics
- */
-export declare function computeAgreementMetrics(x: number[] | Vector, y: number[] | Vector, acceptableLimit?: number): AgreementMetrics;
-/**
- * Perform Bland-Altman analysis
- *
- * @param x - First method measurements
- * @param y - Second method measurements
- * @param acceptableLimit - Optional acceptable difference limit
- * @returns Bland-Altman analysis results
- */
-export declare function blandAltmanAnalysis(x: number[] | Vector, y: number[] | Vector, acceptableLimit?: number): BlandAltmanAnalysis;
-/**
- * Compute precision (repeatability) metrics
- */
-export declare function computePrecisionMetrics(x: Vector, y: Vector): {
-    withinSubjectSD: number;
-    repeatabilityCoefficient: number;
-    withinSubjectCV: number;
-};
-/**
- * Compute bias and accuracy metrics
- */
-export declare function computeBiasMetrics(x: Vector, y: Vector): {
-    meanBias: number;
-    proportionalBias: number;
-    fixedBias: number;
-    relativeAccuracy: number;
-};
-/**
- * Check if agreement is acceptable based on predefined criteria
- */
-export declare function isAgreementAcceptable(metrics: AgreementMetrics, criteria?: {
-    minCCC?: number;
-    maxMeanDifference?: number;
-    maxSDDifference?: number;
-    minCoverageProbability?: number;
-}): {
-    acceptable: boolean;
-    reasons: string[];
-};
-/**
- * Generate agreement report
- */
-export declare function generateAgreementReport(metrics: AgreementMetrics): string;
-//# sourceMappingURL=agreement.d.ts.map

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package/dist/malp/metrics/agreement.js

@@ -1,199 +0,0 @@
-/**
- * Agreement Metrics for Method Comparison
- *
- * Provides comprehensive metrics for assessing agreement between two measurement methods,
- * with focus on CCC and related statistics.
- */
-import { createVector, mean, std } from '../core/linalg';
-import { computeCCC, interpretCCC } from '../core/ccc';
-/**
- * Compute comprehensive agreement metrics
- *
- * @param x - First method (reference/gold standard)
- * @param y - Second method (new/test method)
- * @param acceptableLimit - Optional acceptable difference limit
- * @returns Complete set of agreement metrics
- */
-export function computeAgreementMetrics(x, y, acceptableLimit) {
-    const xVec = Array.isArray(x) ? createVector(x) : x;
-    const yVec = Array.isArray(y) ? createVector(y) : y;
-    if (xVec.length !== yVec.length) {
-        throw new Error(`Vector length mismatch: ${xVec.length} !== ${yVec.length}`);
-    }
-    // Compute CCC and components
-    const { ccc, components } = computeCCC(xVec, yVec);
-    const cccInterpretation = interpretCCC(ccc);
-    // Compute differences
-    const differences = xVec.data.map((val, i) => val - yVec.data[i]);
-    const diffVec = createVector(differences);
-    // Bland-Altman metrics
-    const meanDifference = mean(diffVec);
-    const sdDifference = std(diffVec, meanDifference);
-    const limitsOfAgreement = [
-        meanDifference - 1.96 * sdDifference,
-        meanDifference + 1.96 * sdDifference
-    ];
-    // Overall statistics
-    const overallMean = (components.muX + components.muY) / 2;
-    const coefficientOfVariation = (Math.sqrt((components.sigmaX ** 2 + components.sigmaY ** 2) / 2) / overallMean) * 100;
-    // Total Deviation Index (TDI) - 90th percentile of absolute differences
-    const sortedAbsDiffs = differences.map(Math.abs).sort((a, b) => a - b);
-    const tdi90Index = Math.floor(0.9 * sortedAbsDiffs.length);
-    const tdi90 = sortedAbsDiffs[tdi90Index];
-    // Coverage Probability - proportion within acceptable limit
-    let coverageProbability = 1.0;
-    if (acceptableLimit !== undefined) {
-        const withinLimit = differences.filter(d => Math.abs(d) <= acceptableLimit).length;
-        coverageProbability = withinLimit / differences.length;
-    }
-    return {
-        ccc,
-        cccInterpretation,
-        pearsonCorr: components.rho,
-        meanDifference,
-        sdDifference,
-        limitsOfAgreement,
-        overallMean,
-        coefficientOfVariation,
-        tdi90,
-        coverageProbability,
-        cccComponents: components
-    };
-}
-/**
- * Perform Bland-Altman analysis
- *
- * @param x - First method measurements
- * @param y - Second method measurements
- * @param acceptableLimit - Optional acceptable difference limit
- * @returns Bland-Altman analysis results
- */
-export function blandAltmanAnalysis(x, y, acceptableLimit) {
-    const xVec = Array.isArray(x) ? createVector(x) : x;
-    const yVec = Array.isArray(y) ? createVector(y) : y;
-    if (xVec.length !== yVec.length) {
-        throw new Error(`Vector length mismatch: ${xVec.length} !== ${yVec.length}`);
-    }
-    // Compute differences and means
-    const differences = [];
-    const means = [];
-    const withinLimits = [];
-    for (let i = 0; i < xVec.length; i++) {
-        const diff = xVec.data[i] - yVec.data[i];
-        const mean = (xVec.data[i] + yVec.data[i]) / 2;
-        differences.push(diff);
-        means.push(mean);
-        if (acceptableLimit !== undefined) {
-            withinLimits.push(Math.abs(diff) <= acceptableLimit);
-        }
-        else {
-            withinLimits.push(true);
-        }
-    }
-    const diffVec = createVector(differences);
-    const meanDifference = mean(diffVec);
-    const sdDifference = std(diffVec, meanDifference);
-    return {
-        meanDifference,
-        sdDifference,
-        lowerLimit: meanDifference - 1.96 * sdDifference,
-        upperLimit: meanDifference + 1.96 * sdDifference,
-        differences,
-        means,
-        withinLimits
-    };
-}
-/**
- * Compute precision (repeatability) metrics
- */
-export function computePrecisionMetrics(x, y) {
-    const differences = x.data.map((val, i) => val - y.data[i]);
-    const diffVec = createVector(differences);
-    // Within-subject standard deviation (SD of differences / sqrt(2))
-    const withinSubjectSD = std(diffVec) / Math.sqrt(2);
-    // Repeatability coefficient (1.96 * sqrt(2) * SD_within)
-    const repeatabilityCoefficient = 1.96 * Math.sqrt(2) * withinSubjectSD;
-    // Within-subject coefficient of variation
-    const overallMean = (mean(x) + mean(y)) / 2;
-    const withinSubjectCV = (withinSubjectSD / overallMean) * 100;
-    return {
-        withinSubjectSD,
-        repeatabilityCoefficient,
-        withinSubjectCV
-    };
-}
-/**
- * Compute bias and accuracy metrics
- */
-export function computeBiasMetrics(x, y) {
-    const { components } = computeCCC(x, y);
-    // Mean bias (average difference)
-    const meanBias = components.muX - components.muY;
-    // Proportional bias (slope of regression line - 1)
-    const proportionalBias = (components.sigmaY / components.sigmaX) * components.rho - 1;
-    // Fixed bias (intercept of regression line)
-    const fixedBias = components.muY - (components.muY / components.muX) * components.muX;
-    // Relative accuracy (ratio of means)
-    const relativeAccuracy = components.muY / components.muX;
-    return {
-        meanBias,
-        proportionalBias,
-        fixedBias,
-        relativeAccuracy
-    };
-}
-/**
- * Check if agreement is acceptable based on predefined criteria
- */
-export function isAgreementAcceptable(metrics, criteria = {}) {
-    const reasons = [];
-    let acceptable = true;
-    if (criteria.minCCC !== undefined && metrics.ccc < criteria.minCCC) {
-        acceptable = false;
-        reasons.push(`CCC (${metrics.ccc.toFixed(3)}) below minimum (${criteria.minCCC})`);
-    }
-    if (criteria.maxMeanDifference !== undefined && Math.abs(metrics.meanDifference) > criteria.maxMeanDifference) {
-        acceptable = false;
-        reasons.push(`Mean difference (${metrics.meanDifference.toFixed(3)}) exceeds maximum (${criteria.maxMeanDifference})`);
-    }
-    if (criteria.maxSDDifference !== undefined && metrics.sdDifference > criteria.maxSDDifference) {
-        acceptable = false;
-        reasons.push(`SD of differences (${metrics.sdDifference.toFixed(3)}) exceeds maximum (${criteria.maxSDDifference})`);
-    }
-    if (criteria.minCoverageProbability !== undefined && metrics.coverageProbability < criteria.minCoverageProbability) {
-        acceptable = false;
-        reasons.push(`Coverage probability (${metrics.coverageProbability.toFixed(3)}) below minimum (${criteria.minCoverageProbability})`);
-    }
-    return { acceptable, reasons };
-}
-/**
- * Generate agreement report
- */
-export function generateAgreementReport(metrics) {
-    const lines = [
-        '=== Agreement Analysis Report ===',
-        '',
-        'Primary Metrics:',
-        `  CCC: ${metrics.ccc.toFixed(4)} (${metrics.cccInterpretation})`,
-        `  Pearson r: ${metrics.pearsonCorr.toFixed(4)}`,
-        '',
-        'Bland-Altman Analysis:',
-        `  Mean Difference (Bias): ${metrics.meanDifference.toFixed(4)}`,
-        `  SD of Differences: ${metrics.sdDifference.toFixed(4)}`,
-        `  95% Limits of Agreement: [${metrics.limitsOfAgreement[0].toFixed(4)}, ${metrics.limitsOfAgreement[1].toFixed(4)}]`,
-        '',
-        'Precision Metrics:',
-        `  Coefficient of Variation: ${metrics.coefficientOfVariation.toFixed(2)}%`,
-        `  TDI (90%): ${metrics.tdi90.toFixed(4)}`,
-        `  Coverage Probability: ${(metrics.coverageProbability * 100).toFixed(2)}%`,
-        '',
-        'CCC Components:',
-        `  Location Shift: ${metrics.cccComponents.locationShift.toFixed(4)}`,
-        `  Scale Shift: ${metrics.cccComponents.scaleShift.toFixed(4)}`,
-        `  Precision: ${metrics.cccComponents.precision.toFixed(4)}`,
-        `  Accuracy: ${metrics.cccComponents.accuracy.toFixed(4)}`,
-        ''
-    ];
-    return lines.join('\n');
-}
-//# sourceMappingURL=agreement.js.map

package/dist/malp/metrics/agreement.js.map

@@ -1 +0,0 @@
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package/dist/malp/metrics/comparison.d.ts

@@ -1,93 +0,0 @@
-/**
- * Model Comparison Utilities
- *
- * Compare MALP regression with Ordinary Least Squares (OLS)
- * and other regression methods.
- */
-import { Vector, Matrix } from '../core/linalg';
-/**
- * Regression model performance metrics
- */
-export interface RegressionMetrics {
-    /** Model name */
-    name: string;
-    /** Concordance Correlation Coefficient */
-    ccc: number;
-    /** Mean Squared Error */
-    mse: number;
-    /** Root Mean Squared Error */
-    rmse: number;
-    /** Mean Absolute Error */
-    mae: number;
-    /** R-squared (coefficient of determination) */
-    r2: number;
-    /** Adjusted R-squared */
-    adjustedR2: number;
-    /** Akaike Information Criterion */
-    aic: number;
-    /** Bayesian Information Criterion */
-    bic: number;
-}
-/**
- * Winner types for metric comparisons
- */
-export type Winner = 'MALP' | 'OLS' | 'Tie';
-/**
- * Comparison results between two models
- */
-export interface ComparisonResults {
-    /** MALP model metrics */
-    malp: RegressionMetrics;
-    /** OLS model metrics */
-    ols: RegressionMetrics;
-    /** Performance differences (MALP - OLS) */
-    differences: {
-        ccc: number;
-        mse: number;
-        rmse: number;
-        mae: number;
-        r2: number;
-    };
-    /** Which model is better for each metric */
-    winner: {
-        ccc: Winner;
-        mse: Winner;
-        agreement: Winner;
-        overall: Winner;
-    };
-    /** Summary message */
-    summary: string;
-}
-/**
- * Ordinary Least Squares Regressor
- */
-export declare class OLSRegressor {
-    private coefficients;
-    private intercept;
-    private isFitted;
-    fit(X: number[][] | Matrix, y: number[] | Vector): this;
-    predict(X: number[][] | Matrix): number[];
-    private addInterceptColumn;
-    getCoefficients(): number[] | null;
-    getIntercept(): number;
-}
-/**
- * Compute comprehensive metrics for a regression model
- */
-export declare function computeRegressionMetrics(name: string, yTrue: number[] | Vector, yPred: number[] | Vector, nFeatures: number): RegressionMetrics;
-/**
- * Compare MALP and OLS models
- */
-export declare function compareMALPvsOLS(XTrain: number[][] | Matrix, yTrain: number[] | Vector, XTest?: number[][] | Matrix, yTest?: number[] | Vector): ComparisonResults;
-/**
- * Cross-validation comparison
- */
-export declare function crossValidateComparison(X: number[][] | Matrix, y: number[] | Vector, nFolds?: number): {
-    malpScores: number[];
-    olsScores: number[];
-    malpMean: number;
-    olsMean: number;
-    malpStd: number;
-    olsStd: number;
-};
-//# sourceMappingURL=comparison.d.ts.map

package/dist/malp/metrics/comparison.d.ts.map

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