Uses of Class
fr.orsay.lri.varna.models.templates.RNATemplateMapping

Packages that use RNATemplateMapping
fr.orsay.lri.varna.models.rna   
fr.orsay.lri.varna.models.templates   
 

Uses of RNATemplateMapping in fr.orsay.lri.varna.models.rna
 

Methods in fr.orsay.lri.varna.models.rna that return RNATemplateMapping
 RNATemplateMapping RNA.drawRNATemplate(RNATemplate template)
          Same as below, with default helixLengthAdjustmentMethod.
 RNATemplateMapping RNA.drawRNATemplate(RNATemplate template, int helixLengthAdjustmentMethod)
          Draw this RNA like the given template.
 

Methods in fr.orsay.lri.varna.models.rna with parameters of type RNATemplateMapping
private  void RNA.computeHelixTranslations(Tree<RNANodeValueTemplate> tree, Map<RNATemplate.RNATemplateHelix,Point2D.Double> translateVectors, RNATemplateMapping mapping, Point2D.Double parentDeltaVector)
           
private  Map<RNATemplate.RNATemplateHelix,Point2D.Double> RNA.computeHelixTranslations(Tree<RNANodeValueTemplate> tree, RNATemplateMapping mapping)
           
 

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

Methods in fr.orsay.lri.varna.models.templates that return RNATemplateMapping
static RNATemplateMapping RNATemplateAlign.makeTemplateMapping(TreeAlignResult<RNANodeValue2,RNANodeValueTemplate> alignResult, RNA rna)
          This method takes an alignment between a tree of RNANodeValue2 of RNANodeValue and a tree of RNANodeValue2 of RNANodeValueTemplate, and the original RNA object that was used to create the first tree in the alignment.
static RNATemplateMapping RNATemplateAlign.mapRNAWithTemplate(RNA rna, RNATemplate template)
          Map an RNA with an RNATemplate using tree alignment.
 

Methods in fr.orsay.lri.varna.models.templates with parameters of type RNATemplateMapping
static void RNATemplateAlign.printMapping(RNATemplateMapping mapping, RNATemplate template, String sequence)