include/algo/align/nw/nw_aligner.hpp File Reference

#include <corelib/ncbistd.hpp>
#include <corelib/ncbiobj.hpp>
#include <corelib/ncbi_limits.hpp>
#include <util/tables/raw_scoremat.h>
#include <objects/seqloc/Na_strand.hpp>
#include <vector>
#include <string>

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Classes
class	CNWAligner
struct	CNWAligner::SProgressInfo
class	CNWAligner::CBacktraceMatrix4
struct	CNWAligner::SAlignInOut
Functions
const CNWAligner::TScore	kInfMinus (-(numeric_limits< CNWAligner::TScore >::max()/2))
Variables
const char	g_nwaligner_nucleotides [] = "AGTCBDHKMNRSVWY"

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Function Documentation

const CNWAligner::TScore @0::kInfMinus (  -  (numeric_limits< CNWAligner::TScore >::max()/2)  )  [static]

Referenced by CNWAligner::x_Align(), CPSSMAligner::x_AlignProfile(), CPSSMAligner::x_AlignPSSM(), CMMAligner::x_RunBtm(), CMMAligner::x_RunTerm(), and CMMAligner::x_RunTop().

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Variable Documentation

const char g_nwaligner_nucleotides[] = "AGTCBDHKMNRSVWY" [static]

Definition at line 381 of file nw_aligner.hpp. Referenced by CNWAligner::SetScoreMatrix().

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