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

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

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

Methods in fr.orsay.lri.varna.models.rna with parameters of type RNATemplate
 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.
 

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

Fields in fr.orsay.lri.varna.models.templates declared as RNATemplate
private  RNATemplate RNATemplate.template
          Variable containing "this", used by the internal class to access this object.
 

Methods in fr.orsay.lri.varna.models.templates that return RNATemplate
static RNATemplate RNATemplate.fromXMLDocument(Document xmlDocument)
           
static RNATemplate RNATemplate.fromXMLFile(File file)
           
 RNATemplate RNATemplate.RNATemplateElement.getParentTemplate()
          Returns the template to which this endpoint belongs.
 

Methods in fr.orsay.lri.varna.models.templates with parameters of type RNATemplate
static TreeAlignResult<RNANodeValue2,RNANodeValueTemplate> RNATemplateAlign.alignRNAWithTemplate(RNA rna, RNATemplate template)
          Align the given RNA with the given RNA template.
static RNATemplateMapping RNATemplateAlign.mapRNAWithTemplate(RNA rna, RNATemplate template)
          Map an RNA with an RNATemplate using tree alignment.
static void RNATemplateAlign.printMapping(RNATemplateMapping mapping, RNATemplate template, String sequence)