}
/**
- * DOCUMENT ME!
+ * Search for leaf nodes.
*
- * @param node DOCUMENT ME!
- * @param leaves DOCUMENT ME!
+ * @param node root node to search from
+ * @param leaves Vector of leaves to add leaf node objects too.
*
- * @return DOCUMENT ME!
+ * @return Vector of leaf nodes on binary tree
*/
public Vector findLeaves(SequenceNode node, Vector leaves)
{
}
/**
- * DOCUMENT ME!
+ * Find the leaf node with a particular ycount
*
- * @param node DOCUMENT ME!
- * @param count DOCUMENT ME!
+ * @param node initial point on tree to search from
+ * @param count value to search for
*
- * @return DOCUMENT ME!
+ * @return null or the node with ycound=count
*/
public Object findLeaf(SequenceNode node, int count)
{
return found;
}
- /**
- * DOCUMENT ME!
+ /*#see findLeaf(SequenceNode node, count)
*
- * @param node DOCUMENT ME!
- * @param count DOCUMENT ME!
- *
- * @return DOCUMENT ME!
*/
public Object _findLeaf(SequenceNode node, int count)
{
public int[] gapMap();
/**
- * DOCUMENT ME!
+ * Delete a range of aligned sequence columns, creating a new dataset sequence if necessary
+ * and adjusting start and end positions accordingly.
*
- * @param i DOCUMENT ME!
- * @param j DOCUMENT ME!
+ * @param i first column in range to delete
+ * @param j last column in range to delete
*/
public void deleteChars(int i, int j);