NCBI C++ ToolKit
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Blast_KarlinBlk Struct Reference

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Structure to hold the Karlin-Altschul parameters. More...

#include <algo/blast/core/blast_stat.h>

Public Attributes

double Lambda
 Lambda value used in statistics. More...
 
double K
 K value used in statistics. More...
 
double logK
 natural log of K value used in statistics More...
 
double H
 H value used in statistics. More...
 
double paramC
 for use in seed. More...
 

Detailed Description

Structure to hold the Karlin-Altschul parameters.

Definition at line 66 of file blast_stat.h.

Member Data Documentation

◆ H

double Blast_KarlinBlk::H

◆ K

double Blast_KarlinBlk::K

◆ Lambda

double Blast_KarlinBlk::Lambda

Lambda value used in statistics.

Definition at line 67 of file blast_stat.h.

Referenced by _PSIConvertFreqRatiosToPSSM(), _PSIScaleMatrix(), BLAST_CalcEffLengths(), BLAST_Cutoffs(), BLAST_GetAlphaBeta(), Blast_GetNuclAlphaBeta(), Blast_HSPListGetBitScores(), Blast_HSPListGetEvalues(), Blast_HSPListPHIGetBitScores(), Blast_KarlinBlkCopy(), Blast_KarlinBlkGappedLoadFromTables(), Blast_KarlinBlkNuclGappedCalc(), Blast_KarlinBlkUngappedCalc(), BLAST_KarlinStoE_simple(), Blast_RedoAlignmentCore_MT(), Blast_ScoreBlkKbpUngappedCalc(), BLAST_SpougeEtoS(), BLAST_SpougeStoE(), BlastInitialWordParametersNew(), BlastInitialWordParametersUpdate(), BlastKarlinEtoS_simple(), BOOST_AUTO_TEST_CASE(), CalculateLinkHSPCutoffs(), CBlastAncillaryData::CBlastAncillaryData(), CDistances::ComputeMatrix(), CScoreBuilder::GetBlastBitScore(), CCmdLineBlastXML2ReportData::GetLambda(), CCmdLineBlastXMLReportData::GetLambda(), impalaScaleMatrix(), Kappa_compactSearchItemsNew(), Kappa_impalaScaling(), MakeSomeInvalidKBP(), MakeSomeValidKBP(), CBlastFormatUtil::PrintAsciiPssm(), s_BlastEvenGapLinkHSPs(), s_BlastFindSmallestLambda(), s_BlastKarlinBlkIsValid(), s_Convert_to_CBlast_ka_block(), s_FillScoreBlkWithBadKbp(), s_GappingParamsNew(), s_GetAlignParams(), s_GetEstimatedPhiExpect(), s_HSPPHIGetEvalue(), s_InitializeKarlinBlk(), s_LinkedHSPSetArraySetUp(), s_MatrixInfoInit(), s_PHIScoreBlkFill(), s_PSISavePssm(), s_RescaleSearch(), CPssmEngine::SetUngappedStatisticalParams(), CDistances::x_GetSelfScores(), CScoreBuilder::x_Initialize(), and CBlastFormat::x_PrintOneQueryFooter().

◆ logK

double Blast_KarlinBlk::logK

◆ paramC

double Blast_KarlinBlk::paramC

The documentation for this struct was generated from the following file:
Modified on Thu Feb 29 12:18:05 2024 by modify_doxy.py rev. 669887