Package csb :: Package bio :: Package sequence :: Module alignment

Module alignment

Collection of sequence alignment algorithms.

Note: The classes in this module have been optimized for performance. Think twice before switching a field to a generally nicer property access, because it turns out that these things often add significant constants to the running time of a dynamic programming algorithm.

Classes
	AbstractAlignmentAlgorithm Base class for all sequence alignment algorithms.
	AbstractScoringMatrix Defines a pairwise sequence alignment scoring function.
	AlignmentResult Represents a pairwise sequence alignment result.
	GlobalAlignmentAlgorithm Needleman-Wunsch global sequence alignment.
	IdentityMatrix Simple identity-based scoring matrix.
	LocalAlignmentAlgorithm Smith-Waterman local sequence alignment.
	ResidueNotFoundError
	SimilarityMatrix Similarity scoring matrix.

Variables
	__package__ = `'csb.bio.sequence'`