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Bio.Alignment.SAlign
Contents
Smith-Waterman, or locally optimal alignment Needleman-Wunsch, or globally optimal alignment
Description
Simple alignment of sequences Standard alignment/edit distance
Synopsis
local_score :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> a
local_align :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> EditList
global_score :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> a
global_align :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> EditList
Smith-Waterman, or locally optimal alignment
local_score :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> a | Source
Calculate local edit distance (Smith-Waterman alignment score)
local_align :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> EditList | Source
Needleman-Wunsch, or globally optimal alignment
global_score :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> a | Source
Calculate global edit distance (Needleman-Wunsch alignment score)
global_align :: (Num a, Ord a) => SubstMx t a -> a -> Sequence t -> Sequence t -> EditList | Source
Calculate alignments.
Produced by Haddock version 2.4.2