Uses of Interface
org.biojava.bio.dp.DPMatrix
Packages that use DPMatrix
Package
Description
HMM and Dynamic Programming Algorithms.
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Uses of DPMatrix in org.biojava.bio.dp
Methods in org.biojava.bio.dp that return DPMatrixModifier and TypeMethodDescriptionabstract DPMatrixDP.backwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType) abstract DPMatrixDP.backwardMatrix(SymbolList[] symList, ScoreType scoreType) abstract DPMatrixDP.forwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType) abstract DPMatrixDP.forwardMatrix(SymbolList[] symList, ScoreType scoreType) DP.forwardsBackwards(SymbolList[] symList, ScoreType scoreType) Methods in org.biojava.bio.dp with parameters of type DPMatrixModifier and TypeMethodDescriptionabstract DPMatrixDP.backwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType) abstract DPMatrixDP.forwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType) -
Uses of DPMatrix in org.biojava.bio.dp.onehead
Classes in org.biojava.bio.dp.onehead that implement DPMatrixModifier and TypeClassDescriptionclassThe dynamic programming matrix for a single sequence.Methods in org.biojava.bio.dp.onehead that return DPMatrixModifier and TypeMethodDescriptionSingleDP.backwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType) SingleDP.backwardMatrix(SymbolList[] seq, ScoreType scoreType) SingleDP.forwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType) SingleDP.forwardMatrix(SymbolList[] seq, ScoreType scoreType) Methods in org.biojava.bio.dp.onehead with parameters of type DPMatrixModifier and TypeMethodDescriptionSingleDP.backwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType) SingleDP.forwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType) -
Uses of DPMatrix in org.biojava.bio.dp.twohead
Classes in org.biojava.bio.dp.twohead that implement DPMatrixModifier and TypeClassDescriptionclassStorage structure for intermediate values from a pairwise dynamic programming run.Methods in org.biojava.bio.dp.twohead that return DPMatrixModifier and TypeMethodDescriptionPairwiseDP.backwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType) PairwiseDP.backwardMatrix(SymbolList[] seqs, ScoreType scoreType) PairwiseDP.forwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType) PairwiseDP.forwardMatrix(SymbolList[] seqs, ScoreType scoreType) Methods in org.biojava.bio.dp.twohead with parameters of type DPMatrixModifier and TypeMethodDescriptionPairwiseDP.backwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType) PairwiseDP.forwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType)