@gmod/bam/esm/indexFile.d.ts

Parser for BAM and BAM index (bai) files

import Chunk from './chunk.ts';
import { BaseOpts } from './util.ts';
import type { GenericFilehandle } from 'generic-filehandle2';
export default abstract class IndexFile {
    filehandle: GenericFilehandle;
    renameRefSeq: (s: string) => string;
    constructor({ filehandle, renameRefSeq, }: {
        filehandle: GenericFilehandle;
        renameRefSeq?: (a: string) => string;
    });
    abstract lineCount(refId: number): Promise<number>;
    abstract indexCov(refId: number, start?: number, end?: number): Promise<{
        start: number;
        end: number;
        score: number;
    }[]>;
    abstract blocksForRange(chrId: number, start: number, end: number, opts?: BaseOpts): Promise<Chunk[]>;
}