Interface SAMAlignment

SAM alignment record with validated fields and branded types

interface SAMAlignment {
    format: "sam" | "bam";
    qname: string;
    flag: SAMFlag;
    rname: string;
    pos: number;
    mapq: MAPQScore;
    cigar: CIGARString;
    rnext: string;
    pnext: number;
    tlen: number;
    seq: string;
    qual: string;
    tags?: SAMTag[];
    lineNumber?: number;
}

Hierarchy (View Summary)

SAMAlignment
- BAMAlignment

Index

Properties

format qname flag rname pos mapq cigar rnext pnext tlen seq qual tags? lineNumber?

Properties

`Readonly`format

format: "sam" | "bam"

`Readonly`qname

qname: string

`Readonly`flag

`Readonly`rname

rname: string

`Readonly`pos

pos: number

`Readonly`mapq

mapq: MAPQScore

`Readonly`cigar

cigar: CIGARString

`Readonly`rnext

rnext: string

`Readonly`pnext

pnext: number

`Readonly`tlen

tlen: number

`Readonly`seq

seq: string

`Readonly`qual

qual: string

`Optional` `Readonly`tags

tags?: SAMTag[]

`Optional` `Readonly`lineNumber

lineNumber?: number