Public Member Functions
	Profile (string filename)

int	getIntronIntraFreq (unsigned b, unsigned c, unsigned f)

int	getIntronIntraFreqAtCol (unsigned b, unsigned c)

int	getIntronInterFreq (unsigned b, unsigned n)

unsigned	getIntronNumSeq ()

Position	firstInRange (int blockno=0) const

int	blockCount () const

int	blockSize (int blockno) const

DistanceType	interBlockDist (int blockno) const

Range	interBlockRange (int blockno) const

Column	getColumn (Position pos) const

string	getName () const

string	getInfoLine () const

ostream &	write (ostream &) const

Block &	operator[] (int blockno)

const Block &	operator[] (int blockno) const

Double	getGlobalThresh (bool complement, Position ppos) const

Friends
ostream &	operator<< (ostream &strm, const Profile &P)

void	initConstants ()

Member Function Documentation

◆ getIntronInterFreq()

int PP::Profile::getIntronInterFreq	(	unsigned	b,
		unsigned	n
	)

inline

Parameters

[in]	b	A block number
[in]	n	Number of introns

Returns: The frequency of n introns in the inter-block section before block b. Return -1, if no inter-block intron profile exists before block b.

int PP::Profile::getIntronIntraFreq	(	unsigned	b,
		unsigned	c,
		unsigned	f
	)

inline

Parameters

Returns: The frequency of introns after block column c and f residual nucleotides in block b

int PP::Profile::getIntronIntraFreqAtCol	(	unsigned	b,
		unsigned	c
	)

inline

Parameters

[in]	b	A block number
[in]	c	A block column

unsigned PP::Profile::getIntronNumSeq ( )

inline

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