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Class Alignment

Hierarchy

  • Alignment

Index

Constructors

Properties

Methods

Constructors

constructor

  • new Alignment(seq1: string, seq2: string, gapPenalty?: number, gapExtensionPenalty?: number, substMatrix?: SubstitutionMatrix): Alignment

Properties

H

H: number[][]

S

S: number[][]

V

V: number[][]

ali

ali: string

ali1

ali1: string

ali2

ali2: string

gapExtensionPenalty

gapExtensionPenalty: number

gapPenalty

gapPenalty: number

m

m: number

n

n: number

Optional score

score: undefined | number

seq1

seq1: string

seq2

seq2: string

substMatrix

substMatrix: {}

Type declaration

  • [k: string]: {}
    • [k: string]: number

Methods

calc

  • calc(): void

gap

  • gap(len: number): number

initMatrices

  • initMatrices(): void

makeScoreFn

  • makeScoreFn(): score

trace

  • trace(): void

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