Uses of Interface
org.biojava.bio.dp.WeightMatrix
Packages that use WeightMatrix
-
Uses of WeightMatrix in org.biojava.bio.dp
Classes in org.biojava.bio.dp that implement WeightMatrixMethods in org.biojava.bio.dp that return WeightMatrixMethods in org.biojava.bio.dp with parameters of type WeightMatrixModifier and TypeMethodDescriptionstatic double
DP.scoreWeightMatrix
(WeightMatrix matrix, SymbolList symList, int start) Scores the SymbolList from symbol start to symbol (start+columns) with a weight matrix.static double
DP.scoreWeightMatrix
(WeightMatrix matrix, SymbolList symList, ScoreType scoreType, int start) Scores the SymbolList from symbol start to symbol (start+columns) with a weight matrix using a particular ScoreType.static void
XmlMarkovModel.writeMatrix
(WeightMatrix matrix, PrintStream out) Constructors in org.biojava.bio.dp with parameters of type WeightMatrixModifierConstructorDescriptionWeightMatrixAnnotator
(WeightMatrix wm, double threshold) Create a new annotator that uses PROBABILITY score type.WeightMatrixAnnotator
(WeightMatrix wm, ScoreType scoreType, double threshold) Create a new annotator that uses a specific score type.WeightMatrixAnnotator
(WeightMatrix wm, ScoreType scoreType, double threshold, String wmID) Create a new annotator that uses the PROBABILITY score type and an ID for the weight matrix.WMAsMM
(WeightMatrix wm)