bpp::TreeParsimonyDataInterface Class Reference

TreeParsimonyScore data structure. More...

#include <Bpp/Phyl/Parsimony/TreeParsimonyData.h>

Inheritance diagram for bpp::TreeParsimonyDataInterface:

Collaboration diagram for bpp::TreeParsimonyDataInterface:

Public Member Functions
	TreeParsimonyDataInterface ()
virtual	~TreeParsimonyDataInterface ()
TreeParsimonyDataInterface *	clone () const override=0
virtual const TreeTemplate< Node > &	tree () const =0
virtual std::shared_ptr< const TreeTemplate< Node > >	getTree () const =0
virtual size_t	getArrayPosition (int parentId, int sonId, size_t currentPosition) const =0
virtual size_t	getRootArrayPosition (size_t site) const =0
virtual TreeParsimonyNodeDataInterface &	nodeData (int nodeId)=0
virtual const TreeParsimonyNodeDataInterface &	nodeData (int nodeId) const =0

Detailed Description

TreeParsimonyScore data structure.

Stores all the inner computations:

• subtree scores and ancestral states for each node,
• correspondence between sites in the dataset and array indices.

See also

TreeParsimonyNodeData

Definition at line 56 of file TreeParsimonyData.h.

Constructor & Destructor Documentation

TreeParsimonyDataInterface()

bpp::TreeParsimonyDataInterface::TreeParsimonyDataInterface ( )

inline

Definition at line 60 of file TreeParsimonyData.h.

~TreeParsimonyDataInterface()

virtual bpp::TreeParsimonyDataInterface::~TreeParsimonyDataInterface ( )

inlinevirtual

Definition at line 61 of file TreeParsimonyData.h.

Member Function Documentation

clone()

TreeParsimonyDataInterface* bpp::TreeParsimonyDataInterface::clone ( ) const

overridepure virtual

Implements bpp::Clonable.

Implemented in bpp::DRTreeParsimonyData.

getArrayPosition()

virtual size_t bpp::TreeParsimonyDataInterface::getArrayPosition ( int  parentId, int  sonId, size_t  currentPosition  ) const

pure virtual

Implemented in bpp::DRTreeParsimonyData.

getRootArrayPosition()

virtual size_t bpp::TreeParsimonyDataInterface::getRootArrayPosition ( size_t  site ) const

pure virtual

Implemented in bpp::AbstractTreeParsimonyData.

getTree()

virtual std::shared_ptr<const TreeTemplate<Node> > bpp::TreeParsimonyDataInterface::getTree ( ) const

pure virtual

Implemented in bpp::AbstractTreeParsimonyData.

nodeData() [1/2]

virtual const TreeParsimonyNodeDataInterface& bpp::TreeParsimonyDataInterface::nodeData ( int  nodeId ) const

pure virtual

Implemented in bpp::DRTreeParsimonyData.

nodeData() [2/2]

virtual TreeParsimonyNodeDataInterface& bpp::TreeParsimonyDataInterface::nodeData ( int  nodeId )

pure virtual

Implemented in bpp::DRTreeParsimonyData.

tree()

virtual const TreeTemplate<Node>& bpp::TreeParsimonyDataInterface::tree ( ) const

pure virtual

Implemented in bpp::AbstractTreeParsimonyData.

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The documentation for this class was generated from the following file:

• Bpp/Phyl/Parsimony/TreeParsimonyData.h