PssmMakerOptions Struct Reference

Search Toolkit Book for PssmMakerOptions

#include <algo/structure/cd_utils/cuPssmMaker.hpp>

Public Member Functions
	PssmMakerOptions ()
bool	IsRequestingIntermediateData ()

Public Attributes
short	pseudoCount
double	scalingFactor
string	matrixName
bool	requestInformationContent
	request information content More...
bool	requestResidueFrequencies
	request observed residue frequencies More...
bool	requestWeightedResidueFrequencies
	request observed weighted residue frequencies More...
bool	requestFrequencyRatios
	request frequency ratios More...
bool	requestNumIndepObs
	request number of independent observations per position More...
bool	gaplessColumnWeights
int	unalignedSegThreshold
double	inclusionThreshold
bool	reuseUid

Detailed Description

Definition at line 56 of file cuPssmMaker.hpp.

Constructor & Destructor Documentation

PssmMakerOptions()

PssmMakerOptions::PssmMakerOptions

(

)

Definition at line 78 of file cuPssmMaker.cpp.

Member Function Documentation

IsRequestingIntermediateData()

bool PssmMakerOptions::IsRequestingIntermediateData

(

)

Definition at line 94 of file cuPssmMaker.cpp.

References gaplessColumnWeights, requestFrequencyRatios, requestInformationContent, requestNumIndepObs, requestResidueFrequencies, and requestWeightedResidueFrequencies.

Member Data Documentation

gaplessColumnWeights

bool PssmMakerOptions::gaplessColumnWeights

Definition at line 73 of file cuPssmMaker.hpp.

Referenced by IsRequestingIntermediateData().

inclusionThreshold

double PssmMakerOptions::inclusionThreshold

Definition at line 76 of file cuPssmMaker.hpp.

Referenced by PssmMaker::make().

matrixName

string PssmMakerOptions::matrixName

Definition at line 65 of file cuPssmMaker.hpp.

Referenced by PssmMaker::makeDefaultPssm().

pseudoCount

short PssmMakerOptions::pseudoCount

Definition at line 63 of file cuPssmMaker.hpp.

requestFrequencyRatios

bool PssmMakerOptions::requestFrequencyRatios

request frequency ratios

Definition at line 71 of file cuPssmMaker.hpp.

Referenced by IsRequestingIntermediateData(), and PssmMaker::makeDefaultPssm().

requestInformationContent

bool PssmMakerOptions::requestInformationContent

request information content

Definition at line 68 of file cuPssmMaker.hpp.

Referenced by IsRequestingIntermediateData().

requestNumIndepObs

bool PssmMakerOptions::requestNumIndepObs

request number of independent observations per position

Definition at line 72 of file cuPssmMaker.hpp.

Referenced by IsRequestingIntermediateData().

requestResidueFrequencies

bool PssmMakerOptions::requestResidueFrequencies

request observed residue frequencies

Definition at line 69 of file cuPssmMaker.hpp.

Referenced by IsRequestingIntermediateData().

requestWeightedResidueFrequencies

bool PssmMakerOptions::requestWeightedResidueFrequencies

request observed weighted residue frequencies

Definition at line 70 of file cuPssmMaker.hpp.

Referenced by IsRequestingIntermediateData().

reuseUid

bool PssmMakerOptions::reuseUid

Definition at line 77 of file cuPssmMaker.hpp.

Referenced by PssmMaker::modifyQuery().

scalingFactor

double PssmMakerOptions::scalingFactor

Definition at line 64 of file cuPssmMaker.hpp.

Referenced by PssmMaker::makeDefaultPssm().

unalignedSegThreshold

int PssmMakerOptions::unalignedSegThreshold

Definition at line 75 of file cuPssmMaker.hpp.

Referenced by PssmMaker::make().

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The documentation for this struct was generated from the following files:

• include/algo/structure/cd_utils/cuPssmMaker.hpp
• src/algo/structure/cd_utils/cuPssmMaker.cpp