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Packages that use RNANodeValue | |
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fr.orsay.lri.varna.models.treealign |
Uses of RNANodeValue in fr.orsay.lri.varna.models.treealign |
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Fields in fr.orsay.lri.varna.models.treealign declared as RNANodeValue | |
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private RNANodeValue |
RNANodeValue2.node
Defined if singleNode is true. |
Fields in fr.orsay.lri.varna.models.treealign with type parameters of type RNANodeValue | |
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private List<RNANodeValue> |
RNANodeValue2.nodes
Defined if singleNode is false; |
Methods in fr.orsay.lri.varna.models.treealign that return RNANodeValue | |
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RNANodeValue |
RNANodeValue2.getNode()
In case of a single node, return it. |
Methods in fr.orsay.lri.varna.models.treealign that return types with arguments of type RNANodeValue | |
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List<RNANodeValue> |
RNANodeValue2.getNodes()
In case of multiple nodes, return them. |
static Tree<RNANodeValue> |
RNATree.RNATreeFromRNA(RNA rna)
Convert an RNA object into a RNA tree. |
Tree<RNANodeValue> |
RNATree.ConvertToTree.toTreeAux(int depth)
Starts at the current position i in the sequence and converts the sequence to a tree. |
Methods in fr.orsay.lri.varna.models.treealign with parameters of type RNANodeValue | |
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void |
RNANodeValue2.setNode(RNANodeValue node)
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Method parameters in fr.orsay.lri.varna.models.treealign with type arguments of type RNANodeValue | |
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Mapping |
RNATree.ConvertToMapping.convert(Tree<AlignedNode<RNANodeValue,RNANodeValue>> tree)
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Mapping |
RNATree.ConvertToMapping.convert(Tree<AlignedNode<RNANodeValue,RNANodeValue>> tree)
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private void |
RNATree.ConvertToMapping.convertSubTree(Tree<AlignedNode<RNANodeValue,RNANodeValue>> tree)
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private void |
RNATree.ConvertToMapping.convertSubTree(Tree<AlignedNode<RNANodeValue,RNANodeValue>> tree)
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static Mapping |
RNATree.mappingFromAlignment(Tree<AlignedNode<RNANodeValue,RNANodeValue>> alignment)
Convert an RNA tree alignment into a Mapping. |
static Mapping |
RNATree.mappingFromAlignment(Tree<AlignedNode<RNANodeValue,RNANodeValue>> alignment)
Convert an RNA tree alignment into a Mapping. |
private static List<Tree<RNANodeValue2>> |
RNATree2.RNAForest2FromRNAForest(List<Tree<RNANodeValue>> originalForest)
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private static void |
RNATree2.RNAForest2FromRNAForestCommitNonPaired(List<Tree<RNANodeValue2>> forest,
List<RNANodeValue> consecutiveNonPairedBases)
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static Tree<RNANodeValue2> |
RNATree2.RNATree2FromRNATree(Tree<RNANodeValue> originalTree)
Convert from RNANodeValue model to RNANodeValue2 model, ie. |
void |
RNANodeValue2.setNodes(List<RNANodeValue> nodes)
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