bpp::AASEASup30Index Class Reference

Percentage of amino acids having a Solvent Exposed Area above 30 Angström^2 for each type of amino acid, according to http://prowl.rockefeller.edu/aainfo/access.htm. More...

#include <Bpp/Seq/AlphabetIndex/AASEASup30Index.h>

Inheritance diagram for bpp::AASEASup30Index:

Collaboration diagram for bpp::AASEASup30Index:

Public Member Functions
	AASEASup30Index ()
virtual	~AASEASup30Index ()
AASEASup30Index *	clone () const
double	getIndex (int state) const throw (BadIntException)
	Get the index associated to a state. More...
double	getIndex (const std::string &state) const throw (BadCharException)
	Get the index associated to a state. More...
std::vector< double > *	getIndexVector () const
const Alphabet *	getAlphabet () const
	Get the alphabet associated to this index. More...

Private Attributes
std::vector< double >	seaSup30_

Detailed Description

Percentage of amino acids having a Solvent Exposed Area above 30 Angström^2 for each type of amino acid, according to http://prowl.rockefeller.edu/aainfo/access.htm.

Definition at line 52 of file AASEASup30Index.h.

Constructor & Destructor Documentation

AASEASup30Index()

bpp::AASEASup30Index::AASEASup30Index ( )

inline

Definition at line 59 of file AASEASup30Index.h.

References seaSup30_.

Referenced by clone().

~AASEASup30Index()

virtual bpp::AASEASup30Index::~AASEASup30Index ( )

inlinevirtual

Definition at line 85 of file AASEASup30Index.h.

Member Function Documentation

clone()

AASEASup30Index* bpp::AASEASup30Index::clone ( ) const

inlinevirtual

Implements bpp::AlphabetIndex1.

Definition at line 87 of file AASEASup30Index.h.

References AASEASup30Index().

getAlphabet()

const Alphabet* bpp::AASEASup30Index::getAlphabet ( ) const

inlinevirtual

Get the alphabet associated to this index.

Returns

Alphabet The alphabet associated to this index.

Implements bpp::AlphabetIndex1.

Definition at line 103 of file AASEASup30Index.h.

References bpp::AlphabetTools::PROTEIN_ALPHABET.

getIndex() [1/2]

double bpp::AASEASup30Index::getIndex ( int  state ) const throw ( BadIntException )

inlinevirtual

Get the index associated to a state.

Parameters

state

The state to consider, as a int value.

Returns

The index associated to the state

Implements bpp::AlphabetIndex1.

Definition at line 90 of file AASEASup30Index.h.

References bpp::AlphabetTools::PROTEIN_ALPHABET, and seaSup30_.

getIndex() [2/2]

double bpp::AASEASup30Index::getIndex ( const std::string &  state ) const throw ( BadCharException )

inlinevirtual

Get the index associated to a state.

Parameters

state

The state to consider, as a string value.

Returns

The index associated to the state

Implements bpp::AlphabetIndex1.

Definition at line 96 of file AASEASup30Index.h.

References bpp::LetterAlphabet::charToInt(), bpp::AlphabetTools::PROTEIN_ALPHABET, and seaSup30_.

getIndexVector()

std::vector<double>* bpp::AASEASup30Index::getIndexVector ( ) const

inlinevirtual

Returns

A vector object with all indices.

Implements bpp::AlphabetIndex1.

Definition at line 101 of file AASEASup30Index.h.

References seaSup30_.

Member Data Documentation

seaSup30_

std::vector<double> bpp::AASEASup30Index::seaSup30_

private

Definition at line 56 of file AASEASup30Index.h.

Referenced by AASEASup30Index(), getIndex(), and getIndexVector().

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

• Bpp/Seq/AlphabetIndex/AASEASup30Index.h