@rcsb/rcsb-saguaro-app/lib/RcsbUtils/TrackGenerators/Logo.js

RCSB 1D Saguaro Web App

import { Assertions } from "../Helpers/Assertions";
var assertElementListDefined = Assertions.assertElementListDefined;
var assertDefined = Assertions.assertDefined;
export class Logo {
    constructor(logo) {
        this.symbols = Object();
        this.n = 0;
        assertElementListDefined(logo);
        logo.forEach(s => {
            assertDefined(s.symbol);
            assertDefined(s.value);
            this.symbols[s.symbol] = s.value;
            this.n += s.value;
        });
    }
    aaTypes() {
        return Object.keys(this.symbols);
    }
    /*add(aa: T): void{
        this.symbols[aa] ++;
        this.n ++;
    }*/
    get(aa) {
        const n = this.symbols[aa];
        assertDefined(n);
        return n;
    }
    total() {
        return this.n;
    }
    forEach(callback) {
        this.aaTypes().forEach((aa, n) => {
            callback(aa, n);
        });
    }
    mode() {
        return this.aaTypes().sort((a, b) => (this.symbols[b] - this.symbols[a]))[0];
    }
    frequency() {
        return this.aaTypes().sort((a, b) => (this.symbols[b] - this.symbols[a])).map(a => ({ symbol: a, value: this.get(a) / this.n }));
    }
    entropy() {
        return -this.aaTypes().map(aa => (this.get(aa) != 0 ? (this.get(aa) / this.n) * (Math.log(this.get(aa) / this.n) / Math.log(this.aaTypes().length)) : 0)).reduce((p, v) => (p + v));
    }
}
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