SubstWeightMatrix Class Reference

position-independet substitution weight matrix More...

#include <subst_weight_matrix.hh>

Public Types
typedef short	WeightType
Public Member Functions
	SubstWeightMatrix ()
WeightType	GetWeight (char aa_one, char aa_two) const
void	SetWeight (char aa_one, char aa_two, WeightType weight)
Static Public Attributes
static const int	ALPHABET_SIZE = 'Z'-'A'+1

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Detailed Description

position-independet substitution weight matrix

Definition at line 37 of file subst_weight_matrix.hh.

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Member Typedef Documentation

typedef short WeightType

Definition at line 40 of file subst_weight_matrix.hh.

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Constructor & Destructor Documentation

SubstWeightMatrix

(

)

[inline]

Initialize substitution matrix with zero.

In order to get a useful substitution weight matrix, use SetWeight(). Alternatively you may want to load the substitution from an info group.

Definition at line 46 of file subst_weight_matrix.hh.

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Member Function Documentation

WeightType GetWeight	(	char	aa_one,
		char	aa_two
	)			const [inline]

Definition at line 50 of file subst_weight_matrix.hh.

void SetWeight	(	char	aa_one,
		char	aa_two,
		WeightType	weight
	)			[inline]

Definition at line 57 of file subst_weight_matrix.hh.

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Field Documentation

const int ALPHABET_SIZE = 'Z'-'A'+1 [static]

Definition at line 41 of file subst_weight_matrix.hh.

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

• stage/include/ost/seq/alg/subst_weight_matrix.hh