extendSeedsScore

Function

extendSeedsScore

Extension of seeds with score calculation.

extendSeedsScore(container, scores, query, database, direction, MatchExtend)

extendSeedsScore(begin, end, itScore query, database, direction, MatchExtend)

extendSeedsScore(container, scores, scoreDropOff, scoreMatrix, query, database, direction, tag)

extendSeedsScore(begin, end, itScores, scoreDropOff, scoreMatrix, query, database, direction, tag)

Include Headers

seqan/seeds.h

Parameters

container	The container with the Seed objects to extend. Types: Container
scores	A container with the scores of the seeds. The scores will be increased by the score of the extension. It can be omitted if the seeds container is a SeedSet with scores. Types: Container
itScore	Iterator pointing to the first seeds score. The scores will be increased by the score of the extension.
begin	Iterator pointing to the first value to add.
end	Iterator pointing just behind the last value to add.
query	The query sequence. The database sequence. Types: String, String
direction	Defines the direction in which the seed should be extended. 0 = left, 1 = right, 2 = both
scoreDropOff	The score drop after which the extension should stop. The extension stops if this value is exceeded.
scoreMatrix	The scoring sheme. Types: Simple Score
tag	The algorithm to use. Types: GappedXDrop, MatchExtend, UngappedXDrop