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Packages that use DPMatrix | |
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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 |
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Methods in org.biojava.bio.dp that return DPMatrix | |
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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 | |
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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 |
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Classes in org.biojava.bio.dp.onehead that implement DPMatrix | |
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class |
SingleDPMatrix
The dynamic programming matrix for a single sequence. |
Methods in org.biojava.bio.dp.onehead that return DPMatrix | |
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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 | |
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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 |
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Classes in org.biojava.bio.dp.twohead that implement DPMatrix | |
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class |
PairDPMatrix
Storage structure for intermediate values from a pairwise dynamic programming run. |
Methods in org.biojava.bio.dp.twohead that return DPMatrix | |
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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 | |
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DPMatrix |
PairwiseDP.backwardMatrix(SymbolList[] seqs,
DPMatrix d,
ScoreType scoreType)
|
DPMatrix |
PairwiseDP.forwardMatrix(SymbolList[] seqs,
DPMatrix d,
ScoreType scoreType)
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