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Hierarchy For Package pal.tree
Package Hierarchies:
All Packages
Class Hierarchy
java.lang.Object
pal.alignment.
AbstractAlignment
(implements pal.alignment.
Alignment
, pal.misc.
IdGroup
, pal.misc.
Report
, java.io.Serializable)
pal.tree.
SimulatedAlignment
pal.tree.
CladeSystem
pal.distance.
DistanceMatrix
(implements pal.misc.
IdGroup
, java.io.Serializable)
pal.tree.
TreeDistanceMatrix
pal.tree.
Local
pal.tree.
NodeFactory
pal.tree.
NodeUtils
pal.tree.
ParameterizedTree.ParameterizedTreeBase
(implements pal.misc.
Parameterized
, pal.tree.
Tree
)
pal.tree.
ClockTree
(implements pal.tree.
ParameterizedTree
)
pal.tree.
LogParameterizedTree
(implements pal.tree.
ParameterizedTree
)
pal.tree.
MutationRateModelTree
(implements pal.math.
OrthogonalHints
, pal.tree.
ParameterizedTree
)
pal.tree.
UnconstrainedTree
(implements pal.tree.
ParameterizedTree
)
pal.tree.
RootedTreeInterface.Utils
pal.tree.
RootedTreeUtils
pal.tree.
SimpleNode
(implements pal.tree.
AttributeNode
)
pal.tree.
SimpleTree
(implements pal.misc.
Report
, java.io.Serializable, pal.tree.
Tree
, pal.misc.
Units
)
pal.tree.
ClusterTree
pal.tree.
NeighborJoiningTree
pal.tree.
ReadTree
pal.tree.
UPGMATree
pal.tree.
SimulatedAlignment.Factory
pal.tree.
SplitSystem
pal.tree.
SplitUtils
java.lang.Throwable (implements java.io.Serializable)
java.lang.Exception
pal.tree.
TreeParseException
pal.tree.
Tree.TreeBase
(implements pal.misc.
Report
, java.io.Serializable, pal.tree.
Tree
, pal.misc.
Units
)
pal.tree.
TreeGenerator.Utils
pal.tree.
TreeManipulator
(implements pal.tree.
RootedTreeInterface.Instructee
, pal.tree.
UnrootedTreeInterface.Instructee
)
pal.tree.
TreeManipulator.PALBranchWrapper
pal.tree.
TreeManipulator.PALNodeWrapper
pal.tree.
TreeOperation.Utils
pal.tree.
TreeRestricter
pal.tree.
TreeTool
pal.tree.
TreeUtils
pal.tree.
UnrootedTreeInterface.Utils
Interface Hierarchy
pal.tree.
ClusterTree.ClusteringMethod
pal.misc.
Parameterized
pal.tree.
ParameterizedTree
(also extends pal.tree.
Tree
)
pal.tree.
ParameterizedTree.Factory
pal.tree.
RootedTreeInterface
pal.tree.
RootedTreeInterface.Instructee
pal.tree.
RootedTreeInterface.RBranch
pal.tree.
RootedTreeInterface.RNode
java.io.Serializable
pal.misc.
IdGroup
pal.tree.
Tree
(also extends java.io.Serializable, pal.misc.
Units
, pal.misc.
UnitsProvider
)
pal.tree.
ParameterizedTree
(also extends pal.misc.
Parameterized
)
pal.tree.
Node
pal.tree.
AttributeNode
pal.tree.
Tree
(also extends pal.misc.
IdGroup
, pal.misc.
Units
, pal.misc.
UnitsProvider
)
pal.tree.
ParameterizedTree
(also extends pal.misc.
Parameterized
)
pal.tree.
TreeGenerator
pal.tree.
TreeIterator
pal.tree.
TreeManipulator.BranchAccess
pal.tree.
TreeOperation
pal.misc.
Units
pal.tree.
Tree
(also extends pal.misc.
IdGroup
, java.io.Serializable, pal.misc.
UnitsProvider
)
pal.tree.
ParameterizedTree
(also extends pal.misc.
Parameterized
)
pal.misc.
UnitsProvider
pal.tree.
Tree
(also extends pal.misc.
IdGroup
, java.io.Serializable, pal.misc.
Units
)
pal.tree.
ParameterizedTree
(also extends pal.misc.
Parameterized
)
pal.tree.
UnrootedTreeInterface
pal.tree.
UnrootedTreeInterface.GeneralBranch
pal.tree.
UnrootedTreeInterface.BaseBranch
pal.tree.
UnrootedTreeInterface.UBranch
pal.tree.
UnrootedTreeInterface.Instructee
pal.tree.
UnrootedTreeInterface.UNode
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