Uses of Class
org.metaqtl.Tree

Packages that use Tree
org.metaqtl   
org.metaqtl.algo   
org.metaqtl.factory   
 

Uses of Tree in org.metaqtl
 

Fields in org.metaqtl declared as Tree
 Tree MetaQtlResult.tree
          The qtl tree
 Tree QtlPartition.tree
          The Qtl tree.
 

Methods in org.metaqtl that return Tree
 Tree MetaQtlResult.getQtlTree()
           
 

Methods in org.metaqtl with parameters of type Tree
 void MetaQtlResult.setTree(Tree tree)
           
 void QtlPartition.setTree(Tree tree)
           
 

Uses of Tree in org.metaqtl.algo
 

Methods in org.metaqtl.algo that return Tree
static Tree HClustAlgorithm.CentroidMethod(double[] x, double[] sd)
          This method performs a hierarchical clustering of the given data points using a centroid method based on the mahalanobis distance.
static Tree HClustAlgorithm.run(double[] x, double[] sd)
          This method performs a agglomerative clustering of the given data points where x is the vector of observed values and sd the vector of their standard deviations.
static Tree HClustAlgorithm.WardMethod(double[] x, double[] sd)
          This method performs a hierarchical clustering of the given data points using the Ward's method.
 

Uses of Tree in org.metaqtl.factory
 

Methods in org.metaqtl.factory that return Tree
static Tree TreeFactory.read_newick(java.io.Reader reader)
           
static Tree TreeFactory.read_newick(java.lang.String treeStr)
           
static Tree TreeFactory.read(java.io.Reader reader)
           
static Tree TreeFactory.read(java.lang.String str)
           
 

Methods in org.metaqtl.factory with parameters of type Tree
static void TreeFactory.write(Tree tree, java.io.OutputStream stream)
          This method writes out the given tree nodes as an array of TreeNode on the given output stream stream.
static void TreeFactory.write(Tree tree, java.io.PrintWriter writer)
          This method writes out the given tree nodes as an array of TreeNode using the given writer writer.