contextFold.rnaFolding
Class Traceback
java.lang.Object
contextFold.rnaFolding.Traceback
public class Traceback
- extends java.lang.Object
Contains methods for tracing-back score tables,
in order to produce optimal foldings.
Method Summary |
protected int[] |
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)
|
void |
traceback3(int leftXIBaseType,
int leftXILengthType,
int i)
Resolving the next external branch, from left (5') to right (3'). |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
JUST_ONE_BRANCH
public static final int JUST_ONE_BRANCH
- See Also:
- Constant Field Values
MORE_THAN_ONE_BRANCH
public static final int MORE_THAN_ONE_BRANCH
- See Also:
- Constant Field Values
PAIRED
public static final int PAIRED
- See Also:
- Constant Field Values
UNPAIRED
public static final int UNPAIRED
- See Also:
- Constant Field Values
BEST
public static final int BEST
- See Also:
- Constant Field Values
Traceback
public Traceback()
traceback
protected int[] 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)
traceback3
public void traceback3(int leftXIBaseType,
int leftXILengthType,
int i)
- Resolving the next external branch, from left (5') to right (3').
- Parameters:
leftXIBaseType
- leftXILengthType
- i
- the starting index of the string's 3' suffix.