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Class Summary | |
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RNANodeValue2TemplateDistance | Distance between an RNANodeValue2 and an RNANodeValueTemplate. |
RNANodeValueTemplate | An node from an RNA template is either a sequence of non-paired bases, a base pair originally belonging to an helix, or a single base originally belonging to an helix but which was broken in order to remove pseudoknots. |
RNANodeValueTemplateBasePair | See RNANodeValueTemplate. |
RNANodeValueTemplateBrokenBasePair | See RNANodeValueTemplate. |
RNANodeValueTemplateSequence | See RNANodeValueTemplate. |
RNATemplate | A model for RNA templates. |
RNATemplateAlign | This class is about the alignment between a tree of RNANodeValue2 and a tree of RNANodeValueTemplate. |
RNATemplateMapping | A RNATemplateMapping is a mapping between bases in an RNA sequence and elements in a RNA template. |
Enum Summary | |
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RNATemplate.EdgeEndPointPosition | Position of an endpoint on an endpoint. |
RNATemplate.In1Is | For an helix, tells us whether IN1/OUT1 is the 5' strand (the first strand we meet if we follow the RNA sequence) or the 3' strand (the second we meet if we follow the RNA sequence). |
Exception Summary | |
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RNATemplateDrawingAlgorithmException | Exception thrown in case of failure of the template-based RNA drawing algorithm. |
RNATemplateMappingException | This exception is thrown when we discover that a template is invalid (it contains impossible connections between elements). |
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