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import type { NamedStatistics } from '../../../types';
import { Calculator, InstanceCalculator } from './Calculator';
import type { Types } from '@cornerstonejs/core';
const { PointsManager } = utilities;
// Define an interface for the internal state used by the basic stats calculators
interface BasicStatsState {
max: number[];
min: number[];
sum: number[];
count: number;
maxIJK: Types.Point3 | null;
maxLPS: Types.Point3 | null;
minIJK: Types.Point3 | null;
minLPS: Types.Point3 | null;
runMean: number[];
m2: number[];
m3: number[]; // For skewness calculation
m4: number[]; // For kurtosis calculation
allValues: number[][]; // Store all values for median calculation
pointsInShape?: Types.IPointsManager<Types.Point3> | null;
sumLPS: Types.Point3; // To calculate the center point
}
// Helper function to create a new state
function createBasicStatsState(storePointData: boolean): BasicStatsState {
return {
max: [-Infinity],
min: [Infinity],
sum: [0],
count: 0,
maxIJK: null,
maxLPS: null,
minIJK: null,
minLPS: null,
runMean: [0],
m2: [0],
m3: [0],
m4: [0],
allValues: [[]],
pointsInShape: storePointData ? PointsManager.create3(1024) : null,
sumLPS: [0, 0, 0],
};
}
// Shared logic for updating stats from a callback
function basicStatsCallback(
state: BasicStatsState,
newValue: number | Types.RGB,
pointLPS: Types.Point3 | null = null,
pointIJK: Types.Point3 | null = null
): void {
Iif (
Array.isArray(newValue) &&
newValue.length > 1 &&
state.max.length === 1
) {
state.max.push(state.max[0], state.max[0]);
state.min.push(state.min[0], state.min[0]);
state.sum.push(state.sum[0], state.sum[0]);
state.runMean.push(0, 0);
state.m2.push(state.m2[0], state.m2[0]);
state.m3.push(state.m3[0], state.m3[0]);
state.m4.push(state.m4[0], state.m4[0]);
state.allValues.push([], []);
}
Iif (state?.pointsInShape && pointLPS) {
state.pointsInShape.push(pointLPS);
}
const newArray = Array.isArray(newValue) ? newValue : [newValue];
state.count += 1;
// Accumulate LPS sum if pointLPS is provided
Eif (pointLPS) {
state.sumLPS[0] += pointLPS[0];
state.sumLPS[1] += pointLPS[1];
state.sumLPS[2] += pointLPS[2];
}
state.max.forEach((it, idx) => {
const value = newArray[idx];
// Store value for median calculation
state.allValues[idx].push(value);
// Calculate running statistics using Welford's online algorithm
// extended for higher moments (skewness and kurtosis)
const n = state.count;
const delta = value - state.runMean[idx];
const delta_n = delta / n;
const term1 = delta * delta_n * (n - 1);
// Update mean
state.sum[idx] += value;
state.runMean[idx] += delta_n;
// For kurtosis, must be updated before m3 and m2
state.m4[idx] +=
term1 * delta_n * delta_n * (n * n - 3 * n + 3) +
6 * delta_n * delta_n * state.m2[idx] -
4 * delta_n * state.m3[idx];
// For skewness, must be updated before m2
state.m3[idx] += term1 * delta_n * (n - 2) - 3 * delta_n * state.m2[idx];
// For variance
state.m2[idx] += term1;
if (value < state.min[idx]) {
state.min[idx] = value;
Eif (idx === 0) {
state.minIJK = pointIJK ? [...pointIJK] : null;
state.minLPS = pointLPS ? [...pointLPS] : null;
}
}
if (value > state.max[idx]) {
state.max[idx] = value;
Eif (idx === 0) {
state.maxIJK = pointIJK ? [...pointIJK] : null;
state.maxLPS = pointLPS ? [...pointLPS] : null;
}
}
});
}
// Helper function to calculate median
function calculateMedian(values: number[]): number {
if (values.length === 0) {
return 0;
}
// Sort values
const sorted = [...values].sort((a, b) => a - b);
const mid = Math.floor(sorted.length / 2);
Iif (sorted.length % 2 === 0) {
return (sorted[mid - 1] + sorted[mid]) / 2;
} else {
return sorted[mid];
}
}
// Shared logic for computing the statistics
function basicGetStatistics(
state: BasicStatsState,
unit?: string
): NamedStatistics {
const mean = state.sum.map((sum) => sum / state.count);
const stdDev = state.m2.map((squaredDiffSum) =>
Math.sqrt(squaredDiffSum / state.count)
);
const center = state.sumLPS.map((sum) => sum / state.count) as Types.Point3;
// Calculate skewness
const skewness = state.m3.map((m3, idx) => {
const variance = state.m2[idx] / state.count;
Iif (variance === 0) {
return 0;
}
return m3 / (state.count * Math.pow(variance, 1.5));
});
// Calculate kurtosis (excess kurtosis: normal distribution would be 0)
const kurtosis = state.m4.map((m4, idx) => {
const variance = state.m2[idx] / state.count;
Iif (variance === 0) {
return 0;
}
return m4 / (state.count * variance * variance) - 3;
});
// Calculate median for each channel
const median = state.allValues.map((values) => calculateMedian(values));
const named: NamedStatistics = {
max: {
name: 'max',
label: 'Max Pixel',
value: state.max.length === 1 ? state.max[0] : state.max,
unit,
pointIJK: state.maxIJK ? [...state.maxIJK] : null,
pointLPS: state.maxLPS ? [...state.maxLPS] : null,
},
min: {
name: 'min',
label: 'Min Pixel',
value: state.min.length === 1 ? state.min[0] : state.min,
unit,
pointIJK: state.minIJK ? [...state.minIJK] : null,
pointLPS: state.minLPS ? [...state.minLPS] : null,
},
mean: {
name: 'mean',
label: 'Mean Pixel',
value: mean.length === 1 ? mean[0] : mean,
unit,
},
stdDev: {
name: 'stdDev',
label: 'Standard Deviation',
value: stdDev.length === 1 ? stdDev[0] : stdDev,
unit,
},
count: {
name: 'count',
label: 'Voxel Count',
value: state.count,
unit: null,
},
median: {
name: 'median',
label: 'Median',
value: median.length === 1 ? median[0] : median,
unit,
},
skewness: {
name: 'skewness',
label: 'Skewness',
value: skewness.length === 1 ? skewness[0] : skewness,
unit: null,
},
kurtosis: {
name: 'kurtosis',
label: 'Kurtosis',
value: kurtosis.length === 1 ? kurtosis[0] : kurtosis,
unit: null,
},
maxLPS: {
name: 'maxLPS',
label: 'Max LPS',
value: state.maxLPS ? Array.from(state.maxLPS) : null,
unit: null,
},
minLPS: {
name: 'minLPS',
label: 'Min LPS',
value: state.minLPS ? Array.from(state.minLPS) : null,
unit: null,
},
pointsInShape: state.pointsInShape,
center: {
name: 'center',
label: 'Center',
value: center ? [...center] : null,
unit: null,
},
array: [],
};
named.array.push(
named.min,
named.max,
named.mean,
named.stdDev,
named.median,
named.skewness,
named.kurtosis,
named.count,
named.maxLPS,
named.minLPS
);
Eif (named.center.value) {
named.array.push(named.center);
}
// Reset state for next computation
const store = state.pointsInShape !== null;
const freshState = createBasicStatsState(store);
// Copy fresh state into the provided state object
state.max = freshState.max;
state.min = freshState.min;
state.sum = freshState.sum;
state.count = freshState.count;
state.maxIJK = freshState.maxIJK;
state.maxLPS = freshState.maxLPS;
state.minIJK = freshState.minIJK;
state.minLPS = freshState.minLPS;
state.runMean = freshState.runMean;
state.m2 = freshState.m2;
state.m3 = freshState.m3;
state.m4 = freshState.m4;
state.allValues = freshState.allValues;
state.pointsInShape = freshState.pointsInShape;
state.sumLPS = freshState.sumLPS; // Reset sumLPS
return named;
}
/**
* A static basic stats calculator that uses shared helper functions.
*/
export class BasicStatsCalculator extends Calculator {
private static state: BasicStatsState = createBasicStatsState(true);
public static statsInit(options: { storePointData: boolean }): void {
Eif (!options.storePointData) {
this.state.pointsInShape = null;
}
this.state = createBasicStatsState(options.storePointData);
}
public static statsCallback = ({
value: newValue,
pointLPS = null,
pointIJK = null,
}: {
value: number | Types.RGB;
pointLPS?: Types.Point3 | null;
pointIJK?: Types.Point3 | null;
}): void => {
basicStatsCallback(this.state, newValue, pointLPS, pointIJK);
};
public static getStatistics = (options?: {
unit: string;
}): NamedStatistics => {
return basicGetStatistics(this.state, options?.unit);
};
}
/**
* An instantiable version of BasicStatsCalculator that shares common logic with the static version.
*/
export class InstanceBasicStatsCalculator extends InstanceCalculator {
private state: BasicStatsState;
constructor(options: { storePointData: boolean }) {
super(options);
this.state = createBasicStatsState(options.storePointData);
}
/**
* Resets the internal state.
* @param options Object with storePointData flag.
*/
statsInit(options: { storePointData: boolean }): void {
this.state = createBasicStatsState(options.storePointData);
}
/**
* Processes a new data point for statistics calculation.
* @param data The data object containing value and optional points
*/
statsCallback(data: {
value: number | Types.RGB;
pointLPS?: Types.Point3 | null;
pointIJK?: Types.Point3 | null;
}): void {
basicStatsCallback(this.state, data.value, data.pointLPS, data.pointIJK);
}
/**
* Computes and returns the statistics based on the accumulated data.
* @param options Optional parameters including unit
* @returns The computed statistics
*/
getStatistics(options?: {
unit: string;
spacing?: number[] | number;
}): NamedStatistics {
return basicGetStatistics(this.state, options?.unit);
}
}
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