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Interface Summary | |
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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 | |
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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 | |
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RNANodeValue.Origin |
Exception Summary | |
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RNANodeValue2WrongTypeException | |
RNATree2Exception | |
TreeAlignException |
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