CModelExon Class Reference

Search Toolkit Book for CModelExon

#include <gnomon_model.hpp>

Collaboration diagram for CModelExon:

[legend]List of all members.

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Detailed Description

Definition at line 138 of file gnomon_model.hpp.

Public Member Functions
	CModelExon (TSignedSeqPos f=0, TSignedSeqPos s=0, bool fs=false, bool ss=false)
bool	operator== (const CModelExon &p) const
bool	operator!= (const CModelExon &p) const
bool	operator< (const CModelExon &p) const
	operator TSignedSeqRange () const
const TSignedSeqRange &	Limits () const
TSignedSeqRange &	Limits ()
TSignedSeqPos	GetFrom () const
TSignedSeqPos	GetTo () const
void	Extend (const CModelExon &e)
void	AddFrom (int d)
void	AddTo (int d)
void	Remap (const CRangeMapper &mapper)
Public Attributes
bool	m_fsplice
bool	m_ssplice
Private Attributes
TSignedSeqRange	m_range

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Constructor & Destructor Documentation

CModelExon::CModelExon (  TSignedSeqPos  f = 0, TSignedSeqPos  s = 0, bool  fs = false, bool  ss = false )  [inline]

Definition at line 140 of file gnomon_model.hpp.

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Member Function Documentation

void CModelExon::AddFrom (  int  d  )  [inline]

Definition at line 158 of file gnomon_model.hpp. References COpenRange< Position >::GetFrom(), m_range, and COpenRange< Position >::SetFrom().

void CModelExon::AddTo (  int  d  )  [inline]

Definition at line 159 of file gnomon_model.hpp. References COpenRange< Position >::GetTo(), m_range, and COpenRange< Position >::SetTo().

void CModelExon::Extend (  const CModelExon &  e  )

Definition at line 687 of file gnomon_model.cpp. References _ASSERT, COpenRange< Position >::CombineWith(), GetFrom(), GetTo(), Limits(), m_fsplice, and m_ssplice.

TSignedSeqPos CModelExon::GetFrom (   )  const [inline]

Definition at line 155 of file gnomon_model.hpp. References COpenRange< Position >::GetFrom(), and m_range. Referenced by Extend(), CAnnotationASN1::CImplementationData::spliced_exon(), TrimAlignment::TrimCodingExonLeft(), and TrimAlignment::TrimCodingExonRight().

TSignedSeqPos CModelExon::GetTo (   )  const [inline]

Definition at line 156 of file gnomon_model.hpp. References COpenRange< Position >::GetTo(), and m_range. Referenced by Extend(), CAnnotationASN1::CImplementationData::spliced_exon(), TrimAlignment::TrimCodingExonLeft(), and TrimAlignment::TrimCodingExonRight().

TSignedSeqRange& CModelExon::Limits (   )  [inline]

Definition at line 154 of file gnomon_model.hpp. References m_range.

const TSignedSeqRange& CModelExon::Limits (   )  const [inline]

Definition at line 153 of file gnomon_model.hpp. References m_range. Referenced by Extend(), and operator<().

CModelExon::operator TSignedSeqRange (   )  const [inline]

Definition at line 152 of file gnomon_model.hpp. References m_range.

bool CModelExon::operator!= (  const CModelExon &  p  )  const [inline]

Definition at line 146 of file gnomon_model.hpp.

bool CModelExon::operator< (  const CModelExon &  p  )  const [inline]

Definition at line 150 of file gnomon_model.hpp. References Limits(), and Precede().

bool CModelExon::operator== (  const CModelExon &  p  )  const [inline]

Definition at line 142 of file gnomon_model.hpp. References m_fsplice, m_range, and m_ssplice.

void CModelExon::Remap (  const CRangeMapper &  mapper  )  [inline]

Definition at line 163 of file gnomon_model.hpp. References m_range.

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Member Data Documentation

bool CModelExon::m_fsplice

Definition at line 161 of file gnomon_model.hpp. Referenced by Extend(), operator==(), and CAnnotationASN1::CImplementationData::spliced_exon().

TSignedSeqRange CModelExon::m_range [private]

Definition at line 165 of file gnomon_model.hpp. Referenced by AddFrom(), AddTo(), GetFrom(), GetTo(), Limits(), operator TSignedSeqRange(), operator==(), and Remap().

bool CModelExon::m_ssplice

Definition at line 161 of file gnomon_model.hpp. Referenced by Extend(), operator==(), and CAnnotationASN1::CImplementationData::spliced_exon().

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

• include/algo/gnomon/gnomon_model.hpp
• src/algo/gnomon/gnomon_model.cpp

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