NCBI C++ ToolKit
Functions
sequence_set.cpp File Reference
#include <ncbi_pch.hpp>
#include <corelib/ncbiexpt.hpp>
#include <math.h>
#include <algo/align/ngalign/sequence_set.hpp>
#include <objmgr/util/sequence.hpp>
#include <objmgr/scope.hpp>
#include <objmgr/annot_selector.hpp>
#include <objmgr/annot_ci.hpp>
#include <objects/seqloc/Seq_loc.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <objects/seqalign/Seq_align.hpp>
#include <objects/seqalign/Seq_align_set.hpp>
#include <objects/seqalign/Dense_seg.hpp>
#include <objects/seq/Seq_ext.hpp>
#include <objects/seq/Delta_ext.hpp>
#include <objects/seq/Delta_seq.hpp>
#include <objects/seq/Seq_literal.hpp>
#include <algo/align/util/score_builder.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 <objtools/readers/fasta.hpp>
#include <algo/blast/blastinput/blast_scope_src.hpp>
#include <algo/blast/blastinput/blast_fasta_input.hpp>
#include <algo/blast/blastinput/blast_input_aux.hpp>
#include <objtools/blast/seqdb_reader/seqdbcommon.hpp>
#include <algo/dustmask/symdust.hpp>
#include <objmgr/object_manager.hpp>
#include <objtools/data_loaders/blastdb/bdbloader.hpp>
+ Include dependency graph for sequence_set.cpp:

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Functions

 USING_SCOPE (objects)
 
 USING_SCOPE (blast)
 
CRef< CSeq_locs_GetMaskLoc (const CSeq_id &Id, CSeqMasker *SeqMasker, CScope &Scope)
 
CRef< CSeq_locs_GetClipLoc (const CSeq_id &Id, CScope &Scope)
 
CRef< CSeq_locs_GetUngapLoc (const CSeq_id &Id, CScope &Scope)
 

Function Documentation

◆ s_GetClipLoc()

CRef<CSeq_loc> s_GetClipLoc ( const CSeq_id Id,
CScope Scope 
)

◆ s_GetMaskLoc()

CRef<CSeq_loc> s_GetMaskLoc ( const CSeq_id Id,
CSeqMasker SeqMasker,
CScope Scope 
)

◆ s_GetUngapLoc()

CRef<CSeq_loc> s_GetUngapLoc ( const CSeq_id Id,
CScope Scope 
)

◆ USING_SCOPE() [1/2]

USING_SCOPE ( blast  )

◆ USING_SCOPE() [2/2]

USING_SCOPE ( objects  )
Modified on Wed Jul 17 13:20:19 2024 by modify_doxy.py rev. 669887