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NCBI C++ ToolKit: src/objects/scoremat/Pssm.cpp Source File

!

().GetSeq().CanGetInst() ||

!

().GetSeq().GetInst().CanGetLength() ) {

retval.

().clear();

!

().GetSeq().CanGetInst() ||

!

().GetSeq().GetInst().CanGetSeq_data() ) {

back_inserter(retval.

()));

back_inserter(retval.

()));

User-defined methods of the data storage class.

User-defined methods of the data storage class.

void SetHUngapped(double val)

double GetKappaUngapped() const

void GetQuerySequenceData(CNCBIstdaa &sequence) const

Retrieve the query sequence data in ncbistdaa format.

void SetLambdaUngapped(double val)

double GetLambdaUngapped() const

static const double kInvalidStat

double GetHUngapped() const

void SetKappa(double val)

SIZE_TYPE GetQueryLength() const

Return the query length or 0 if no query is available.

void SetKappaUngapped(double val)

void SetLambda(double val)

static TSeqPos Convert(const CSeq_data &in_seq, CSeq_data *out_seq, CSeq_data::E_Choice to_code, TSeqPos uBeginIdx=0, TSeqPos uLength=0, bool bAmbig=false, Uint4 seed=17734276)

const TPrim & Get(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

NCBI_NS_STD::string::size_type SIZE_TYPE

const TQuery & GetQuery(void) const

Get the Query member data.

void SetLambda(TLambda value)

Assign a value to Lambda data member.

TH GetH(void) const

Get the H member data.

TKappa GetKappa(void) const

Get the Kappa member data.

void SetKappaUngapped(TKappaUngapped value)

Assign a value to KappaUngapped data member.

void SetKappa(TKappa value)

Assign a value to Kappa data member.

const TFinalData & GetFinalData(void) const

Get the FinalData member data.

bool CanGetFinalData(void) const

Check if it is safe to call GetFinalData method.

void SetLambdaUngapped(TLambdaUngapped value)

Assign a value to LambdaUngapped data member.

void SetHUngapped(THUngapped value)

Assign a value to HUngapped data member.

THUngapped GetHUngapped(void) const

Get the HUngapped member data.

bool CanGetQuery(void) const

Check if it is safe to call GetQuery method.

TLambdaUngapped GetLambdaUngapped(void) const

Get the LambdaUngapped member data.

TKappaUngapped GetKappaUngapped(void) const

Get the KappaUngapped member data.

void SetH(TH value)

Assign a value to H data member.

TFinalData & SetFinalData(void)

Assign a value to FinalData data member.

TLambda GetLambda(void) const

Get the Lambda member data.

const TSeq & GetSeq(void) const

Get the variant data.

const TInst & GetInst(void) const

Get the Inst member data.

bool IsNcbistdaa(void) const

Check if variant Ncbistdaa is selected.

TLength GetLength(void) const

Get the Length member data.

const TNcbistdaa & GetNcbistdaa(void) const

Get the variant data.

const TSeq_data & GetSeq_data(void) const

Get the Seq_data member data.

@ e_Ncbistdaa

consecutive codes for std aas

void copy(Njn::Matrix< S > *matrix_, const Njn::Matrix< T > &matrix0_)

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