Uses of Class
pal.tree.ParameterizedTree.ParameterizedTreeBase
Packages that use ParameterizedTree.ParameterizedTreeBase
Package
Description
Classes to model population genetic processes using the coalescent.
Classes for providing the data structure of
trees, for constructing and modifying trees, and for parameterizing
trees (e.g., clock constraint).
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Uses of ParameterizedTree.ParameterizedTreeBase in pal.coalescent
Subclasses of ParameterizedTree.ParameterizedTreeBase in pal.coalescentModifier and TypeClassDescriptionclass
Provides parameter interface to a clock-like genealogy which is assumed to have some demographic pattern of theta (diversity) as well as branch parameters (the minimal node height differences at each internal node). -
Uses of ParameterizedTree.ParameterizedTreeBase in pal.tree
Subclasses of ParameterizedTree.ParameterizedTreeBase in pal.treeModifier and TypeClassDescriptionclass
provides parameter interface to a clock tree (parameters are the minimal node height differences at each internal node)class
This class logarithmically transforms tree parameters.class
Provides parameter interface to any clock-like tree with serially sampled tips (parameters are the minimal node height differences at each internal node).class
provides parameter interface to an unconstrained tree (parameters are all available branch lengths)Constructors in pal.tree with parameters of type ParameterizedTree.ParameterizedTreeBaseModifierConstructorDescriptionprotected
Cloning constructor