Uses of Interface
contextFold.scoring.StructreElementsScorer

Packages that use StructreElementsScorer
contextFold.features Contains scoring model's parameterization related functionalities. 
contextFold.learn Contains weight learning related functionalities. 
contextFold.rnaFolding Contains RNA secondary structure prediction related utilities. 
contextFold.scoring Contains RNA secondary structure scoring and similarity computation related utilities. 
 

Uses of StructreElementsScorer in contextFold.features
 

Methods in contextFold.features that return StructreElementsScorer
 StructreElementsScorer FeatureManager.getElementScorer(RNA rna)
           
 

Uses of StructreElementsScorer in contextFold.learn
 

Methods in contextFold.learn with parameters of type StructreElementsScorer
protected  int[][] Learn.getFolds(StructreElementsScorer Gs)
           
 

Uses of StructreElementsScorer in contextFold.rnaFolding
 

Methods in contextFold.rnaFolding with parameters of type StructreElementsScorer
 float Folder.computeDPTables(StructreElementsScorer es, java.util.List<int[]> optFoldings, int numOfOutputFoldings)
          Fills the dynamic programming scoring tables.
protected  int[] Traceback.traceback(int[][] _scores_3, int[] _cot, int[] _il, int[] _ml1, int[] _ml2, int[][] _rowOctIxs, StructreElementsScorer _es, int _n, int[] _hpBaseAccumScores, int[] _hpLengthScores, int[] _ilBaseScores, int[] _mlBaseScores, int[][] _ilLengthScores, int[] _ilAccumBases, StructureRecognizerImpl _csr)
           
 

Uses of StructreElementsScorer in contextFold.scoring
 

Classes in contextFold.scoring that implement StructreElementsScorer
 class StructreElementsScorerImpl