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## jprotein.tree.tools
Class NJ

    java.lang.Object
      jprotein.tree.tools.NJ

    public class NJ

extends java.lang.Object

Constructor Summary
`NJ(MultiAlignment multiAlignment, SubstitutionMatrix sm)`

Method Summary
`DistanceMatrix` | `getDistanceMatrix()`
`Node` | `getTree()`
`void` | `rootTree()`
`java.lang.String` | `toString()`

Methods inherited from class java.lang.Object
`equals, getClass, hashCode, notify, notifyAll, wait, wait, wait`

Constructor Detail

### NJ

    public NJ(MultiAlignment multiAlignment,
              SubstitutionMatrix sm)
       throws java.lang.Exception

Throws:
  `java.lang.Exception`

Method Detail

### getDistanceMatrix

    public DistanceMatrix getDistanceMatrix()

### getTree

    public Node getTree()

### toString

    public java.lang.String toString()

  Overrides:
    `toString` in class `java.lang.Object`

### rootTree

    public void rootTree()

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