Generation of exon candidates (=possible exons) More...

#include <exoncand.hh>

Public Member Functions
	ExonCandidate (ExonType s=UNKNOWN_EXON, long int b=0, long int e=0, double sc=0.0, Double up_sc=1.0, Double down_sc=1.0)

	ExonCandidate (ExonCandidate *other)

int	getStart ()

int	getEnd ()

int	frame () const

int	frame (int p) const

Double	getUpScore () const

Double	getDownScore () const

double	getScore () const

void	setUpScore (Double s)

void	setDownScore (Double s)

void	setScore (double s)

int	getFirstCodingBase ()

int	getLastCodingBase ()

int	gff3Frame ()

int	len ()

ExonType	getExonType ()

int	complementType ()

StateType	getStateType ()

string	key ()

int_fast64_t	getKey ()

bool	correctType (const char *dna, int dnalen)

Public Attributes
ExonType	type

int	begin

int	end

double	score

Friends
ostream &	operator<< (ostream &strm, const ExonCandidate &ec)

Detailed Description

Generation of exon candidates (=possible exons)

An exon candidate is a sequence interval with frame and strand information such that
at the 5' end is either an ASS or a start codon and
at the 3' end is either a DSS or a stop codon.

Author: Mario Stanke; Alexander Gebauer

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

include/exoncand.hh
src/exoncand.cc

Public Member Functions

Public Attributes

Friends

Detailed Description