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NCBI C++ ToolKit: include/objects/scoremat/PssmIntermediateData_.hpp Source File

e_weightedResFreqsPerPos,

e_informationContent,

e_gaplessColumnWeights,

IsSetResFreqsPerPos(

)

;

CanGetResFreqsPerPos(

)

;

ResetResFreqsPerPos(

);

IsSetWeightedResFreqsPerPos(

)

;

CanGetWeightedResFreqsPerPos(

)

;

ResetWeightedResFreqsPerPos(

);

IsSetFreqRatios(

)

;

CanGetFreqRatios(

)

;

ResetFreqRatios(

);

IsSetInformationContent(

)

;

CanGetInformationContent(

)

;

ResetInformationContent(

);

IsSetGaplessColumnWeights(

)

;

CanGetGaplessColumnWeights(

)

;

ResetGaplessColumnWeights(

);

IsSetSigma(

)

;

CanGetSigma(

)

;

ResetSigma(

);

& GetSigma(

)

;

& SetSigma(

);

IsSetIntervalSizes(

)

;

CanGetIntervalSizes(

)

;

ResetIntervalSizes(

);

IsSetNumMatchingSeqs(

)

;

CanGetNumMatchingSeqs(

)

;

ResetNumMatchingSeqs(

);

IsSetNumIndeptObsr(

)

;

CanGetNumIndeptObsr(

)

;

ResetNumIndeptObsr(

);

Reset(

);

Base class for all serializable objects.

uint32_t Uint4

4-byte (32-bit) unsigned integer

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define NCBI_SCOREMAT_EXPORT

bool IsSetNumMatchingSeqs(void) const

Number of matching sequences per position of the PSSM (including the query) NOTE: this is needed for ...

const TFreqRatios & GetFreqRatios(void) const

Get the FreqRatios member data.

const TNumMatchingSeqs & GetNumMatchingSeqs(void) const

Get the NumMatchingSeqs member data.

const TNumIndeptObsr & GetNumIndeptObsr(void) const

Get the NumIndeptObsr member data.

const TGaplessColumnWeights & GetGaplessColumnWeights(void) const

Get the GaplessColumnWeights member data.

bool IsSetInformationContent(void) const

Information content per position of the PSSM NOTE: this is needed for diagnostics information only (i...

list< int > TNumMatchingSeqs

TGaplessColumnWeights & SetGaplessColumnWeights(void)

Assign a value to GaplessColumnWeights data member.

TResFreqsPerPos & SetResFreqsPerPos(void)

Assign a value to ResFreqsPerPos data member.

const TWeightedResFreqsPerPos & GetWeightedResFreqsPerPos(void) const

Get the WeightedResFreqsPerPos member data.

TWeightedResFreqsPerPos & SetWeightedResFreqsPerPos(void)

Assign a value to WeightedResFreqsPerPos data member.

bool CanGetFreqRatios(void) const

Check if it is safe to call GetFreqRatios method.

list< double > m_GaplessColumnWeights

TInformationContent & SetInformationContent(void)

Assign a value to InformationContent data member.

bool CanGetWeightedResFreqsPerPos(void) const

Check if it is safe to call GetWeightedResFreqsPerPos method.

bool CanGetInformationContent(void) const

Check if it is safe to call GetInformationContent method.

bool CanGetResFreqsPerPos(void) const

Check if it is safe to call GetResFreqsPerPos method.

const TIntervalSizes & GetIntervalSizes(void) const

Get the IntervalSizes member data.

list< int > m_NumMatchingSeqs

list< int > TResFreqsPerPos

DECLARE_INTERNAL_TYPE_INFO()

bool CanGetNumIndeptObsr(void) const

Check if it is safe to call GetNumIndeptObsr method.

bool IsSetResFreqsPerPos(void) const

observed residue frequencies (or counts) per position of the PSSM (prior to application of pseudocoun...

bool IsSetFreqRatios(void) const

PSSM's frequency ratios Check if a value has been assigned to FreqRatios data member.

list< double > m_NumIndeptObsr

const TSigma & GetSigma(void) const

Get the Sigma member data.

const TInformationContent & GetInformationContent(void) const

Get the InformationContent member data.

list< int > m_ResFreqsPerPos

bool IsSetWeightedResFreqsPerPos(void) const

Weighted observed residue frequencies per position of the PSSM.

TFreqRatios & SetFreqRatios(void)

Assign a value to FreqRatios data member.

TIntervalSizes & SetIntervalSizes(void)

Assign a value to IntervalSizes data member.

bool IsSetIntervalSizes(void) const

Length of the aligned regions per position of the query sequence NOTE: this is needed for diagnostics...

bool IsSetGaplessColumnWeights(void) const

Relative weight for columns of the PSSM without gaps to pseudocounts NOTE: this is needed for diagnos...

CPssmIntermediateData_Base & operator=(const CPssmIntermediateData_Base &)

list< double > TWeightedResFreqsPerPos

list< double > m_WeightedResFreqsPerPos

TSigma & SetSigma(void)

Assign a value to Sigma data member.

bool IsSetNumIndeptObsr(void) const

Number of independent observations per position of the PSSM NOTE: this is needed for building CDD dat...

bool CanGetIntervalSizes(void) const

Check if it is safe to call GetIntervalSizes method.

list< double > TNumIndeptObsr

list< double > TFreqRatios

list< double > m_InformationContent

CPssmIntermediateData_Base(const CPssmIntermediateData_Base &)

bool IsSetSigma(void) const

Used in sequence weights computation NOTE: this is needed for diagnostics information only (i....

const TResFreqsPerPos & GetResFreqsPerPos(void) const

Get the ResFreqsPerPos member data.

list< int > TIntervalSizes

list< int > m_IntervalSizes

TNumMatchingSeqs & SetNumMatchingSeqs(void)

Assign a value to NumMatchingSeqs data member.

list< double > TInformationContent

TNumIndeptObsr & SetNumIndeptObsr(void)

Assign a value to NumIndeptObsr data member.

list< double > m_FreqRatios

Tparent::CMemberIndex< E_memberIndex, 10 > TmemberIndex

bool CanGetSigma(void) const

Check if it is safe to call GetSigma method.

bool CanGetGaplessColumnWeights(void) const

Check if it is safe to call GetGaplessColumnWeights method.

bool CanGetNumMatchingSeqs(void) const

Check if it is safe to call GetNumMatchingSeqs method.

list< double > TGaplessColumnWeights

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