Uses of Class
net.maizegenetics.taxa.tree.CladeSystem

Packages that use CladeSystem

Package	Description
net.maizegenetics.taxa.tree	Classes for providing the data structure of trees, for constructing and modifying trees, and for parameterizing trees (e.g., clock constraint).

Uses of CladeSystem in net.maizegenetics.taxa.tree

Methods in net.maizegenetics.taxa.tree that return CladeSystem

Modifier and Type	Method and Description
static CladeSystem	CladeSystem.getClades(TaxaList idGroup, Tree tree) creates a clade system from a tree (using a pre-specified order of sequences)
static CladeSystem	CladeSystem.getClades(Tree tree) creates a clade system from a tree (using tree-induced order of sequences)
static CladeSystem[]	CladeSystem.getCladeSystems(Tree[] trees)

Methods in net.maizegenetics.taxa.tree with parameters of type CladeSystem

Modifier and Type	Method and Description
static void	CladeSystem.calculateCladeProbabilities(Tree tree, CladeSystem[] cladeSystems)