Uses of Class
org.biojava.bio.symbol.UkkonenSuffixTree.SuffixNode

Packages that use UkkonenSuffixTree.SuffixNode
org.biojava.bio.symbol Representation of the Symbols that make up a sequence, and locations within them. 
 

Uses of UkkonenSuffixTree.SuffixNode in org.biojava.bio.symbol
 

Methods in org.biojava.bio.symbol that return UkkonenSuffixTree.SuffixNode
 UkkonenSuffixTree.SuffixNode UkkonenSuffixTree.getRoot()
           
 UkkonenSuffixTree.SuffixNode UkkonenSuffixTree.jumpTo(UkkonenSuffixTree.SuffixNode starting, CharSequence source, int from, int to)
          Just like walkTo, but faster when used during tree construction, as it assumes that a mismatch can only occurs with the last character of the target string.
 UkkonenSuffixTree.SuffixNode UkkonenSuffixTree.walkTo(UkkonenSuffixTree.SuffixNode starting, String source, int from, int to)
          This method is used to walk down the tree, from a given node.
 

Methods in org.biojava.bio.symbol with parameters of type UkkonenSuffixTree.SuffixNode
protected  ArrayList UkkonenSuffixTree.getAllNodes(UkkonenSuffixTree.SuffixNode root, ArrayList list, boolean leavesOnly)
           
protected  CharSequence UkkonenSuffixTree.getEdgeLabel(UkkonenSuffixTree.SuffixNode child)
           
protected  int UkkonenSuffixTree.getEdgeLength(UkkonenSuffixTree.SuffixNode child)
          Tree navigation methods
protected  CharSequence UkkonenSuffixTree.getLabel(UkkonenSuffixTree.SuffixNode node)
           
protected  int UkkonenSuffixTree.getPathEnd(UkkonenSuffixTree.SuffixNode node)
           
protected  int UkkonenSuffixTree.getPathLength(UkkonenSuffixTree.SuffixNode node)
           
 UkkonenSuffixTree.SuffixNode UkkonenSuffixTree.jumpTo(UkkonenSuffixTree.SuffixNode starting, CharSequence source, int from, int to)
          Just like walkTo, but faster when used during tree construction, as it assumes that a mismatch can only occurs with the last character of the target string.
 UkkonenSuffixTree.SuffixNode UkkonenSuffixTree.walkTo(UkkonenSuffixTree.SuffixNode starting, String source, int from, int to)
          This method is used to walk down the tree, from a given node.