NCBI C++ ToolKit
Functions
merge_aligner.cpp File Reference
#include <ncbi_pch.hpp>
#include <corelib/ncbiexpt.hpp>
#include <corelib/ncbi_system.hpp>
#include <math.h>
#include <algo/align/ngalign/merge_aligner.hpp>
#include <objects/seqloc/Seq_loc.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <objmgr/scope.hpp>
#include <algo/blast/api/blast_types.hpp>
#include <algo/blast/api/bl2seq.hpp>
#include <algo/blast/api/blast_options_handle.hpp>
#include <algo/blast/api/blast_nucl_options.hpp>
#include <algo/blast/api/disc_nucl_options.hpp>
#include <algo/align/util/score_builder.hpp>
#include <objects/seqalign/Seq_align.hpp>
#include <objects/seqalign/Seq_align_set.hpp>
#include <objects/seqalign/Dense_seg.hpp>
#include <objmgr/seq_vector.hpp>
#include <algo/blast/api/local_blast.hpp>
#include <algo/blast/blastinput/blastn_args.hpp>
#include <algo/sequence/align_cleanup.hpp>
#include <algo/align/util/genomic_compart.hpp>
+ Include dependency graph for merge_aligner.cpp:

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Functions

 USING_SCOPE (objects)
 
static bool s_SortByAlignedLength (const CRef< objects::CSeq_align > &A, const CRef< objects::CSeq_align > &B)
 
static bool s_SortByScore (const CRef< objects::CSeq_align > &A, const CRef< objects::CSeq_align > &B)
 

Function Documentation

◆ s_SortByAlignedLength()

static bool s_SortByAlignedLength ( const CRef< objects::CSeq_align > &  A,
const CRef< objects::CSeq_align > &  B 
)
static

Definition at line 222 of file merge_aligner.cpp.

References CScoreBuilderBase::GetAlignLength().

Referenced by CMergeAligner::x_SortAlignSet().

◆ s_SortByScore()

static bool s_SortByScore ( const CRef< objects::CSeq_align > &  A,
const CRef< objects::CSeq_align > &  B 
)
static

Definition at line 233 of file merge_aligner.cpp.

References CSeq_align::eScore_Score.

Referenced by CMergeAligner::x_SortAlignSet().

◆ USING_SCOPE()

USING_SCOPE ( objects  )
Modified on Tue May 21 10:59:13 2024 by modify_doxy.py rev. 669887