Scored SeedSet

Class Specialization

Scored SeedSet

SeedSet that uses scored Seeds.

Scored SeedSet

SeedSet<TPosition, TSeedSpec, TScoringScheme, TSpec>

Include Headers

seqan/seeds.h

Parameters

TPosition	Type that saves the positions and upper/lower bounds. Remarks: Positive and negative values are needed.
TSeedSpec	The Seed specialization.
TScoringScheme	The scoring sheme to use.

Specialization of

Metafunctions

Iterator	Type of iterator objects that are used to traverse the container. (SeedSet)
Spec	The spec of a class. (SeedSet)
Value	Type of the items in the container. (SeedSet)
Value	Type of the items in the container. (SeedSet)

Member Functions

Constructor (SeedSet)

Functions

addSeed	Adds a seed to an existing set. (SeedSet)
addSeeds	Adds several seeds to an existing set. If a merging or chaining algorithm is used seeds are added if the merging or chaining fails. (SeedSet)
begin	The begin of a container. (SeedSet)
begin	The begin of a container. (SeedSet)
end	The end of a container. (SeedSet)
end	The end of a container. (SeedSet)
maximumDistance	Sets the maximal distance between two seed during a chaining process. (SeedSet)
qualityValue	Sets the minimum length for a seed to be saved permanently. (SeedSet)
setMaximumDistance	Sets the maximal distance between two seed during a chaining process. (SeedSet)
setQualityValue	Sets the minimum length for a seed to be saved permanently. (SeedSet)

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