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 |
Class | 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
|
Class | Description |
---|---|
RootedTree |
A tree with a root (node with maximum height).
|
Class | Description |
---|---|
Tree |
A rooted or unrooted tree.
|
Class | Description |
---|---|
Tree |
A rooted or unrooted tree.
|
Class | Description |
---|---|
RootedTree |
A tree with a root (node with maximum height).
|
Class | 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.
|
Class | Description |
---|---|
RootedTree |
A tree with a root (node with maximum height).
|
http://code.google.com/p/jebl2/