OpenStructure
ins_del.hh
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1 //------------------------------------------------------------------------------
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3 //
4 // Copyright (C) 2008-2020 by the OpenStructure authors
5 //
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18 //------------------------------------------------------------------------------
19 #ifndef OST_SEQ_ALG_INS_DEL_HH
20 #define OST_SEQ_ALG_INS_DEL_HH
21 
22 /*
23  Author: Marco Biasini
24  */
28 
29 namespace ost { namespace seq { namespace alg {
30 
44 public:
46  InsDel(const AlignmentHandle& aln, int seq_a=0, int seq_b=1);
51 private:
52  AlignmentHandle aln_;
53  int seq_a_;
54  int seq_b_;
55  AlignedRegionList insdels_;
56 };
57 
58 }}}
59 
60 #endif
representation of a multiple sequence alignemnt consisting of two or more sequences
get insertions and deletions of an alignment
Definition: ins_del.hh:43
AlignedRegionList GetDeletions(int ref) const
get regiosn that are deletions for the reference sequence
AlignedRegionList GetInsertions(int ref) const
get regions that are insertions of the reference sequence
InsDel(const AlignmentHandle &aln, int seq_a=0, int seq_b=1)
construct new ins del instance
std::vector< AlignedRegion > AlignedRegionList
Definition: base.dox:1
#define DLLEXPORT_OST_SEQ_ALG