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## Uses of Package
de.jstacs.algorithms.alignment.cost

Packages that use de.jstacs.algorithms.alignment.cost
de.jstacs.algorithms.alignment | Provides classes for alignments
de.jstacs.algorithms.alignment.cost | Provides classes for cost functions used in alignments

Classes in de.jstacs.algorithms.alignment.cost used by de.jstacs.algorithms.alignment
Costs The general interface for the costs of an alignment.

Classes in de.jstacs.algorithms.alignment.cost used by de.jstacs.algorithms.alignment.cost
AffineCosts This class implements affine gap costs, i.e., the costs for starting a new gap are given by `start`, and the costs for elongating a gap by one position are given by `elong`.
Costs The general interface for the costs of an alignment.
Costs.Direction The direction of the predecessor in the DP (dynamic programming)-matrix.

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