IAlnExplorer Class Reference

Search Toolkit Book for IAlnExplorer

Alignment explorer interface. More...

#include <objtools/alnmgr/aln_explorer.hpp>

Inheritance diagram for IAlnExplorer:

Public Types
enum	EAlignType {   fDNA = 0x01 , fProtein = 0x02 , fMixed = 0x04 , fHomogenous = fDNA | fProtein ,   fInvalid = 0x80000000 }
enum	ESearchDirection {   eNone , eBackwards , eForward , eLeft ,   eRight }
	Position search options. More...
enum	ESortState { eUnSorted , eAscending , eDescending , eNotSupported }
typedef int	TNumrow
typedef objects::CSeqVector::TResidue	TResidue
typedef CRange< TSeqPos >	TRange
typedef CRange< TSignedSeqPos >	TSignedRange

Detailed Description

Alignment explorer interface.

Base class for CAlnMap and CSparseAln.

See also

CAlnMap

CSparseAln

Definition at line 49 of file aln_explorer.hpp.

Member Typedef Documentation

TNumrow

typedef int IAlnExplorer::TNumrow

Definition at line 52 of file aln_explorer.hpp.

TRange

typedef CRange<TSeqPos> IAlnExplorer::TRange

Definition at line 79 of file aln_explorer.hpp.

TResidue

typedef objects::CSeqVector::TResidue IAlnExplorer::TResidue

Definition at line 53 of file aln_explorer.hpp.

TSignedRange

typedef CRange<TSignedSeqPos> IAlnExplorer::TSignedRange

Definition at line 80 of file aln_explorer.hpp.

Member Enumeration Documentation

EAlignType

enum IAlnExplorer::EAlignType

Enumerator
fDNA
fProtein
fMixed
fHomogenous
fInvalid

Definition at line 55 of file aln_explorer.hpp.

ESearchDirection

enum IAlnExplorer::ESearchDirection

Position search options.

Enumerator
eNone	No search.
eBackwards	Towards lower seq coord (to the left if plus strand, right if minus)
eForward	Towards higher seq coord (to the right if plus strand, left if minus)
eLeft	Towards lower aln coord (always to the left)
eRight	Towards higher aln coord (always to the right)

Definition at line 64 of file aln_explorer.hpp.

ESortState

enum IAlnExplorer::ESortState

Enumerator
eUnSorted
eAscending
eDescending
eNotSupported

Definition at line 72 of file aln_explorer.hpp.

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The documentation for this class was generated from the following file:

• include/objtools/alnmgr/aln_explorer.hpp