EditDistance

Class Specialization

EditDistance

Edit distance scoring scheme.

EditDistance

Score<TValue, EditDistance>

Include Headers

seqan/score.h

Parameters

TValue

The value type.

Default: int

Remarks

Semantically equivalent to a default contructed Score<int, Simple>.

EditDistance is a synonym for LevenshteinDistance.

Specialization of

Metafunctions

DefaultFindBeginPatternSpec	Type of the default findBegin pattern specialization, given a score. (Score)
Value	Type of the items in the container. (Score)

Member Functions

Constructor (Score)

Functions

alignmentEvaluation	Given a multiple alignment, this function calculates all kinds of alignment statistics. (Score)
globalAlignment	Computes the best global alignment of the two sequences. (Score)
globalMsaAlignment	Computes a global multiple alignment. (Score)
localAlignment	Computes the best local alignment of two sequences. (Score)
matchRefinement	Refines (i.e. cuts into smaller parts) a set of pairwise segment matches in such a way that none of the segments partly overlap. They are either identical (fully overlapping) or non-overlapping. (Score)
multiLocalAlignment	Computes multiple local alignments of two sequences. (Score)
score	Returns the score for aligning the characters seq1[pos1] and seq2[pos2]. This function allows to define a position-dependent scoring scheme. (Score)
score	Returns the score for aligning the characters seq1[pos1] and seq2[pos2]. This function allows to define a position-dependent scoring scheme. (Score)
sumOfPairsScore	Given a multiple alignment, this function calculates the sum-of-pairs score. (Score)

Shortcuts

Edit distance scoring scheme.

Example Programs