| Class Specialization Scored SeedSet SeedSet that uses scored Seeds.
SeedSet
Scored SeedSet
SeedSet<TPosition, TSeedSpec, TScoringScheme, TSpec> 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 SeedSet 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)
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)
end | The end of a container. (SeedSet)
globalChaining | Calculates the best global chain using the Gusfield-Algorithm with scores (ManhattanDistance) and without.
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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