## Uses of Interface
org.biojava.bio.dp.DPMatrix

Packages that use DPMatrix
org.biojava.bio.dp: HMM and Dynamic Programming Algorithms.
org.biojava.bio.dp.onehead
org.biojava.bio.dp.twohead

Uses of DPMatrix in org.biojava.bio.dp

Methods in org.biojava.bio.dp that return DPMatrix
`abstract DPMatrix` `DP.backwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType)`
`abstract DPMatrix` `DP.backwardMatrix(SymbolList[] symList, ScoreType scoreType)`
`abstract DPMatrix` `DP.forwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType)`
`abstract DPMatrix` `DP.forwardMatrix(SymbolList[] symList, ScoreType scoreType)`
`DPMatrix` `DP.forwardsBackwards(SymbolList[] symList, ScoreType scoreType)`

Methods in org.biojava.bio.dp with parameters of type DPMatrix
`abstract DPMatrix` `DP.backwardMatrix(SymbolList[] symList, DPMatrix matrix, ScoreType scoreType)`
`abstract DPMatrix` `DP.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 DPMatrix
`class` `SingleDPMatrix` The dynamic programming matrix for a single sequence.

Methods in org.biojava.bio.dp.onehead that return DPMatrix
`DPMatrix` `SingleDP.backwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType)`
`DPMatrix` `SingleDP.backwardMatrix(SymbolList[] seq, ScoreType scoreType)`
`DPMatrix` `SingleDP.forwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType)`
`DPMatrix` `SingleDP.forwardMatrix(SymbolList[] seq, ScoreType scoreType)`

Methods in org.biojava.bio.dp.onehead with parameters of type DPMatrix
`DPMatrix` `SingleDP.backwardMatrix(SymbolList[] seq, DPMatrix matrix, ScoreType scoreType)`
`DPMatrix` `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 DPMatrix
`class` `PairDPMatrix` Storage structure for intermediate values from a pairwise dynamic programming run.

Methods in org.biojava.bio.dp.twohead that return DPMatrix
`DPMatrix` `PairwiseDP.backwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType)`
`DPMatrix` `PairwiseDP.backwardMatrix(SymbolList[] seqs, ScoreType scoreType)`
`DPMatrix` `PairwiseDP.forwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType)`
`DPMatrix` `PairwiseDP.forwardMatrix(SymbolList[] seqs, ScoreType scoreType)`

Methods in org.biojava.bio.dp.twohead with parameters of type DPMatrix
`DPMatrix` `PairwiseDP.backwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType)`
`DPMatrix` `PairwiseDP.forwardMatrix(SymbolList[] seqs, DPMatrix d, ScoreType scoreType)`