Uses of Package
jebl.evolution.trees

Packages that use jebl.evolution.trees

Package	Description
jebl.evolution.align	Provides classes and interfaces for pairwise alignment of two sequences.
jebl.evolution.coalescent
jebl.evolution.io
jebl.evolution.parsimony
jebl.evolution.treemetrics
jebl.evolution.trees
jebl.evolution.treesimulation

Classes in jebl.evolution.trees used by jebl.evolution.align

Class and Description
RootedTree A tree with a root (node with maximum height).
Tree A rooted or unrooted tree.
TreeBuilderFactory.DistanceModel Supported pairwise distance methods
TreeBuilderFactory.Method Supported methods for tree building

Classes in jebl.evolution.trees used by jebl.evolution.coalescent

Class and Description
RootedTree A tree with a root (node with maximum height).

Classes in jebl.evolution.trees used by jebl.evolution.io

Class and Description
Tree A rooted or unrooted tree.

Classes in jebl.evolution.trees used by jebl.evolution.parsimony

Class and Description
Tree A rooted or unrooted tree.

Classes in jebl.evolution.trees used by jebl.evolution.treemetrics

Class and Description
RootedTree A tree with a root (node with maximum height).

Classes in jebl.evolution.trees used by jebl.evolution.trees

Class and Description
CladeSystem Stores a set of unique clades for a tree
ClusteringTreeBuilder An abstract base class for clustering algorithms from pairwise distances
ConsensusTreeBuilder A TreeBuilder that builds a consensus tree for a set of trees on identical leaf sets.
ConsensusTreeBuilder.Method Supported consensus methods.
FilteredRootedTree
ReRootedTree.RootingType
RootedTree A tree with a root (node with maximum height).
SortedRootedTree.BranchOrdering
SplitSystem data structure for a set of splits
TransformedRootedTree.Transform
Tree A rooted or unrooted tree.
TreeBiPartitionInfo Work in progress
TreeBiPartitionInfo.DistanceNorm
TreeBuilder
TreeBuilderFactory.ConsensusMethod Supported consensus methods.
TreeBuilderFactory.DistanceModel Supported pairwise distance methods
TreeBuilderFactory.Method Supported methods for tree building
TreeChangeEvent Represents a change to a tree.
TreeSelectionChangeEvent Represents a change to the selected nodes in a tree.

Classes in jebl.evolution.trees used by jebl.evolution.treesimulation

Class and Description
RootedTree A tree with a root (node with maximum height).