Substitution Class Reference

#include <Substitution.h>

Inherited by Blosum.

Inheritance diagram for Substitution:

[legend]List of all members.

Public Member Functions
	Substitution ()
	Default constructor.
	Substitution (const Substitution &orig)
	Copy constructor.
virtual	~Substitution ()
	Destructor.
Substitution &	operator= (const Substitution &orig)
	Assigment operator.
virtual string	getResidues () const =0
	Dummy implementation.
virtual void	buildscore (const string &residues, const vector< vector< int > > &residuescores)
	Builds scoring matrix from raw data.
Static Public Member Functions
template<class T>
static void	pWriteDoubleVector (ostream &os, vector< vector< T > > data)
	Helper function used to write a vector<vector> construct.
template<class T>
static void	pReadDoubleVector (istream &is, vector< vector< T > > &data)
	Helper function used to read a vector<vector> construct.
Public Attributes
vector< vector< int > >	score
	Substitution score.
Protected Member Functions
virtual void	copy (const Substitution &orig)
	Copies orig object to this object ("deep copy").
Friends
ostream &	operator<< (ostream &os, const Substitution &object)
	Output operator.
istream &	operator>> (istream &is, Substitution &object)
	Input operator.

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Detailed Description

Base class for deriving substitution matrices.

Author:

Eckart Bindewald, Silvio Tosatto

Date:

02/2001

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Constructor & Destructor Documentation

Substitution::Substitution (   )

Default constructor.

Substitution::Substitution (  const Substitution &  orig  )

Copy constructor.

Substitution::~Substitution (   )  [virtual]

Destructor.

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Member Function Documentation

void Substitution::buildscore (  const string &  residues, const vector< vector< int > > &  residuescores )  [virtual]

Builds scoring matrix from raw data.

void Substitution::copy (  const Substitution &  orig  )  [protected, virtual]

Copies orig object to this object ("deep copy").

virtual string Substitution::getResidues (   )  const [pure virtual]

Dummy implementation. Implemented in Blosum.

Substitution & Substitution::operator= (  const Substitution &  orig  )

Assigment operator.

template<class T> void Substitution::pReadDoubleVector (  istream &  is, vector< vector< T > > &  data )  [static]

Helper function used to read a vector<vector> construct.

template<class T> void Substitution::pWriteDoubleVector (  ostream &  os, vector< vector< T > >  data )  [static]

Helper function used to write a vector<vector> construct.

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Friends And Related Function Documentation

ostream& operator<< (  ostream &  os, const Substitution &  object )  [friend]

Output operator.

istream& operator>> (  istream &  is, Substitution &  object )  [friend]

Input operator.

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Member Data Documentation

vector<vector<int> > Substitution::score

Substitution score.

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

• Substitution.h
• Substitution.cc

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