Uses of Interface
fr.orsay.lri.varna.models.treealign.GraphvizDrawableNodeValue

Packages that use GraphvizDrawableNodeValue
fr.orsay.lri.varna.models.templates   
fr.orsay.lri.varna.models.treealign   
 

Uses of GraphvizDrawableNodeValue in fr.orsay.lri.varna.models.templates
 

Classes in fr.orsay.lri.varna.models.templates that implement GraphvizDrawableNodeValue
 class 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.
 class RNANodeValueTemplateBasePair
          See RNANodeValueTemplate.
 class RNANodeValueTemplateBrokenBasePair
          See RNANodeValueTemplate.
 class RNANodeValueTemplateSequence
          See RNANodeValueTemplate.
 

Uses of GraphvizDrawableNodeValue in fr.orsay.lri.varna.models.treealign
 

Classes in fr.orsay.lri.varna.models.treealign that implement GraphvizDrawableNodeValue
 class AlignedNode<OriginalNodeValueType1,OriginalNodeValueType2>
          The type of node values in an alignment.
 class 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.
 class RNANodeValue2
          In this model, nodes are either: 1.
 

Method parameters in fr.orsay.lri.varna.models.treealign with type arguments of type GraphvizDrawableNodeValue
private  String AlignedNode.maybeNodeToGraphvizNodeName(Tree<? extends GraphvizDrawableNodeValue> tree)
           
private static String TreeGraphviz.subtreeToGraphviz(Tree<? extends GraphvizDrawableNodeValue> tree)
           
static String TreeGraphviz.treeToGraphviz(Tree<? extends GraphvizDrawableNodeValue> tree, String title)
          Creates a graphviz source from a Tree.
static void TreeGraphviz.treeToGraphvizFile(Tree<? extends GraphvizDrawableNodeValue> tree, String filename)
          Like treeToGraphvizFile(Tree,String,String) but with the title equal to the filename.
static void TreeGraphviz.treeToGraphvizFile(Tree<? extends GraphvizDrawableNodeValue> tree, String filename, String title)
          Creates a graphviz source file from a Tree.
static void TreeGraphviz.treeToGraphvizPostscript(Tree<? extends GraphvizDrawableNodeValue> tree, String filename)
          Like treeToGraphvizPostscript(Tree,String,String) but with the title equal to the filename.
static void TreeGraphviz.treeToGraphvizPostscript(Tree<? extends GraphvizDrawableNodeValue> tree, String filename, String title)
          Generates a PostScript file using graphviz.