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| Interface Summary | |
|---|---|
| GraphvizDrawableNodeValue | A tree can be displayed using graphviz (using class TreeGraphviz) if the node values in the tree implement this interface. |
| TreeAlignLabelDistanceAsymmetric<ValueType1,ValueType2> | |
| TreeAlignLabelDistanceSymmetric<ValueType> | Same as TreeAlignLabelDistanceAsymmetric, but elements on both trees are of the same type, and the function is symmetric, ie. |
| Class Summary | |
|---|---|
| AlignedNode<OriginalNodeValueType1,OriginalNodeValueType2> | The type of node values in an alignment. |
| ExampleDistance2 | This distance is such that a substitution costs nothing. |
| ExampleDistance3 | |
| RNANodeValue | We use the following convention: If the node is marked by a couple (n,m) these integers are stored in leftBasePosition and rightBasePosition (ie. |
| RNANodeValue2 | In this model, nodes are either: 1. |
| RNATree | This class contains all functions that are specific to trees (class Tree) of RNA. |
| RNATree.ConvertToMapping | |
| RNATree.ConvertToTree | |
| RNATree2 | This class contains all functions that are specific to trees (class Tree) of RNA, with RNANodeValue2. |
| RNATree2.ConvertToMapping | |
| Tree<T> | An object of this class is a rooted tree, where children are ordered. |
| TreeAlign<ValueType1,ValueType2> | Tree alignment algorithm. |
| TreeAlignResult<ValueType1,ValueType2> | The result of aligning a tree T1 with a tree T2. |
| TreeGraphviz | This class translates a Tree to a graphviz file. |
| Enum Summary | |
|---|---|
| RNANodeValue.Origin | |
| Exception Summary | |
|---|---|
| RNANodeValue2WrongTypeException | |
| RNATree2Exception | |
| TreeAlignException | |
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