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

e_bitScoreReportingThresh,

IsSetPseudocount(

)

;

CanGetPseudocount(

)

;

ResetPseudocount(

);

IsSetRpsdbparams(

)

;

CanGetRpsdbparams(

)

;

ResetRpsdbparams(

);

IsSetConstraints(

)

;

CanGetConstraints(

)

;

ResetConstraints(

);

IsSetBitScoreThresh(

)

;

CanGetBitScoreThresh(

)

;

ResetBitScoreThresh(

);

IsSetBitScoreReportingThresh(

)

;

CanGetBitScoreReportingThresh(

)

;

ResetBitScoreReportingThresh(

);

IsSetAnnotatedSites(

)

;

CanGetAnnotatedSites(

)

;

ResetAnnotatedSites(

);

Reset(

);

Populated by PSSM engine of PSI-BLAST, original source for these values are the PSI-BLAST options spe...

Base class for all serializable objects.

static char UnassignedByte(void)

void ThrowUnassigned(TMemberIndex index) const

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 IsSetAnnotatedSites(void) const

conserved functional sites with annotations Check if a value has been assigned to AnnotatedSites data...

TPseudocount GetPseudocount(void) const

Get the Pseudocount member data.

void ResetPseudocount(void)

Reset Pseudocount data member.

void ResetBitScoreReportingThresh(void)

Reset BitScoreReportingThresh data member.

DECLARE_INTERNAL_TYPE_INFO()

bool IsSetBitScoreThresh(void) const

bit score threshold for specific conserved domain hits Check if a value has been assigned to BitScore...

bool IsSetBitScoreReportingThresh(void) const

bit score threshold for reporting any conserved domain hits Check if a value has been assigned to Bit...

bool CanGetAnnotatedSites(void) const

Check if it is safe to call GetAnnotatedSites method.

double TBitScoreReportingThresh

CSite_annot_set TAnnotatedSites

void ResetBitScoreThresh(void)

Reset BitScoreThresh data member.

CPssmParameters_Base & operator=(const CPssmParameters_Base &)

bool CanGetRpsdbparams(void) const

Check if it is safe to call GetRpsdbparams method.

CRef< TRpsdbparams > m_Rpsdbparams

CRef< TConstraints > m_Constraints

TPseudocount & SetPseudocount(void)

Assign a value to Pseudocount data member.

bool IsSetRpsdbparams(void) const

data needed by formatrpsdb to create RPS-BLAST databases.

TBitScoreThresh & SetBitScoreThresh(void)

Assign a value to BitScoreThresh data member.

const TConstraints & GetConstraints(void) const

Get the Constraints member data.

TBitScoreThresh GetBitScoreThresh(void) const

Get the BitScoreThresh member data.

bool CanGetConstraints(void) const

Check if it is safe to call GetConstraints method.

bool IsSetPseudocount(void) const

pseudocount constant used for PSSM.

CRef< TAnnotatedSites > m_AnnotatedSites

bool CanGetBitScoreThresh(void) const

Check if it is safe to call GetBitScoreThresh method.

bool IsSetConstraints(void) const

alignment constraints needed by sequence-structure threader and other global or local block-alignment...

bool CanGetPseudocount(void) const

Check if it is safe to call GetPseudocount method.

CFormatRpsDbParameters TRpsdbparams

TBitScoreReportingThresh & SetBitScoreReportingThresh(void)

Assign a value to BitScoreReportingThresh data member.

Tparent::CMemberIndex< E_memberIndex, 7 > TmemberIndex

bool CanGetBitScoreReportingThresh(void) const

Check if it is safe to call GetBitScoreReportingThresh method.

const TAnnotatedSites & GetAnnotatedSites(void) const

Get the AnnotatedSites member data.

TBitScoreReportingThresh GetBitScoreReportingThresh(void) const

Get the BitScoreReportingThresh member data.

const TRpsdbparams & GetRpsdbparams(void) const

Get the Rpsdbparams member data.

CPssmParameters_Base(const CPssmParameters_Base &)

double m_BitScoreReportingThresh

const GenericPointer< typename T::ValueType > T2 value

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