BioFeatures Class Reference

#include <BioFeatures.h>

Inheritance diagram for BioFeatures:

List of all members.

Public Member Functions
	BioFeatures ()
	~BioFeatures ()
void	setFeatures (vector< string >)
int	getNumberOfSources ()
BioFTKSingleSource	getSource (int)
int	getNumberOfGenes ()
BioFTKSingleGene	getGene (int)
int	getNumberOfCdss ()
BioFTKSingleCds	getCds (int)
void	showCds (int, ostream &os=cout)
int	getNumberOfEnhancers ()
BioFTKSingleEnhancer	getEnhancer (int)
int	getNumberOfTATASignals ()
BioFTKSingleTATASignal	getTATASignal (int)
int	getNumberOfCAATSignals ()
BioFTKSingleCAATSignal	getCAATSignal (int)
int	getNumberOfLtrs ()
BioFTKSingleLtr	getLtr (int)
int	getNumberOf5PrimeClips ()
BioFTKSingle5PrimeClip	get5PrimeClip (int)
int	getNumberOf3PrimeClips ()
BioFTKSingle3PrimeClip	get3PrimeClip (int)
int	getNumberOf5PrimeUtrs ()
BioFTKSingle5PrimeUtr	get5PrimeUtr (int)
int	getNumberOf3PrimeUtrs ()
BioFTKSingle3PrimeUtr	get3PrimeUtr (int)
int	getNumberOf_10Signals ()
BioFTKSingle_10Signal	get_10Signal (int)
int	getNumberOf_35Signals ()
BioFTKSingle_35Signal	get_35Signal (int)
int	getNumberOfVariations ()
BioFTKSingleVariation	getVariation (int)
int	getNumberOfUnsures ()
BioFTKSingleUnsure	getUnsure (int)
int	getNumberOfExons ()
BioFTKSingleExon	getExon (int)
int	getNumberOf_s ()
BioFTKSingle_	get_ (int)
int	getNumberOfAttenuators ()
BioFTKSingleAttenuator	getAttenuator (int)
int	getNumberOfConflicts ()
BioFTKSingleConflict	getConflict (int)
int	getNumberOfCRegions ()
BioFTKSingleCRegion	getCRegion (int)
int	getNumberOfDLoops ()
BioFTKSingleDLoop	getDLoop (int)
int	getNumberOfDSegments ()
BioFTKSingleDSegment	getDSegment (int)
int	getNumberOfGCSignals ()
BioFTKSingleGCSignal	getGCSignal (int)
int	getNumberOfIDnas ()
BioFTKSingleIDna	getIDna (int)
int	getNumberOfIntrons ()
BioFTKSingleIntron	getIntron (int)
int	getNumberOfJSegments ()
BioFTKSingleJSegment	getJSegment (int)
int	getNumberOfMatPeptides ()
BioFTKSingleMatPeptide	getMatPeptide (int)
int	getNumberOfMiscBindings ()
BioFTKSingleMiscBinding	getMiscBinding (int)
int	getNumberOfMiscDifferences ()
BioFTKSingleMiscDifference	getMiscDifference (int)
int	getNumberOfMiscFeatures ()
BioFTKSingleMiscFeature	getMiscFeature (int)
int	getNumberOfMiscRecombs ()
BioFTKSingleMiscRecomb	getMiscRecomb (int)
int	getNumberOfMiscRnas ()
BioFTKSingleMiscRna	getMiscRna (int)
int	getNumberOfMiscSignals ()
BioFTKSingleMiscSignal	getMiscSignal (int)
int	getNumberOfMiscStructures ()
BioFTKSingleMiscStructure	getMiscStructure (int)
int	getNumberOfModifiedBases ()
BioFTKSingleModifiedBase	getModifiedBase (int)
int	getNumberOfMRnas ()
BioFTKSingleMRna	getMRna (int)
int	getNumberOfNRegions ()
BioFTKSingleNRegion	getNRegion (int)
int	getNumberOfOldSequences ()
BioFTKSingleOldSequence	getOldSequence (int)
int	getNumberOfPolyASignals ()
BioFTKSinglePolyASignal	getPolyASignal (int)
int	getNumberOfPolyASites ()
BioFTKSinglePolyASite	getPolyASite (int)
int	getNumberOfPrecursorRnas ()
BioFTKSinglePrecursorRna	getPrecursorRna (int)
int	getNumberOfPrimerBinds ()
BioFTKSinglePrimerBind	getPrimerBind (int)
int	getNumberOfPrimTranscripts ()
BioFTKSinglePrimTranscript	getPrimTranscript (int)
int	getNumberOfPromoters ()
BioFTKSinglePromoter	getPromoter (int)
int	getNumberOfProteinBinds ()
BioFTKSingleProteinBind	getProteinBind (int)
int	getNumberOfRbs ()
BioFTKSingleRbs	getRbs (int)
int	getNumberOfRepeatRegions ()
BioFTKSingleRepeatRegion	getRepeatRegion (int)
int	getNumberOfRepeatUnits ()
BioFTKSingleRepeatUnit	getRepeatUnit (int)
int	getNumberOfRepOrigins ()
BioFTKSingleRepOrigin	getRepOrigin (int)
int	getNumberOfRRnas ()
BioFTKSingleRRna	getRRna (int)
int	getNumberOfSatellites ()
BioFTKSingleSatellite	getSatellite (int)
int	getNumberOfSCRnas ()
BioFTKSingleSCRna	getSCRna (int)
int	getNumberOfSigPeptides ()
BioFTKSingleSigPeptide	getSigPeptide (int)
int	getNumberOfSNORnas ()
BioFTKSingleSNORna	getSNORna (int)
int	getNumberOfSNRnas ()
BioFTKSingleSNRna	getSNRna (int)
int	getNumberOfSRegions ()
BioFTKSingleSRegion	getSRegion (int)
int	getNumberOfStemLoops ()
BioFTKSingleStemLoop	getStemLoop (int)
int	getNumberOfSts ()
BioFTKSingleSts	getSts (int)
int	getNumberOfTerminators ()
BioFTKSingleTerminator	getTerminator (int)
int	getNumberOfTransitPeptides ()
BioFTKSingleTransitPeptide	getTransitPeptide (int)
int	getNumberOfTRnas ()
BioFTKSingleTRna	getTRna (int)
int	getNumberOfVRegions ()
BioFTKSingleVRegion	getVRegion (int)
int	getNumberOfVSegments ()
BioFTKSingleVSegment	getVSegment (int)
int	getNumberOfGaps ()
BioFTKSingleGap	getGap (int)
int	getNumberOfOperons ()
BioFTKSingleOperon	getOperon (int)
int	getNumberOfOriTs ()
BioFTKSingleOriT	getOriT (int)
void	showBioFeatures (ostream &=cout, string st=" ")
void	showFeatureKeys (ostream &=cout)

---

Constructor & Destructor Documentation

BioFeatures::BioFeatures

(

)

[inline]

BioFeatures::~BioFeatures

(

)

---

Member Function Documentation

BioFTKSingle3PrimeClip BioFeatures::get3PrimeClip

(

int

)

BioFTKSingle3PrimeUtr BioFeatures::get3PrimeUtr

(

int

)

BioFTKSingle5PrimeClip BioFeatures::get5PrimeClip

(

int

)

BioFTKSingle5PrimeUtr BioFeatures::get5PrimeUtr

(

int

)

BioFTKSingle_ BioFeatures::get_

(

int

)

BioFTKSingle_10Signal BioFeatures::get_10Signal

(

int

)

BioFTKSingle_35Signal BioFeatures::get_35Signal

(

int

)

BioFTKSingleAttenuator BioFeatures::getAttenuator

(

int

)

BioFTKSingleCAATSignal BioFeatures::getCAATSignal

(

int

)

BioFTKSingleCds BioFeatures::getCds

(

int

)

BioFTKSingleConflict BioFeatures::getConflict

(

int

)

BioFTKSingleCRegion BioFeatures::getCRegion

(

int

)

BioFTKSingleDLoop BioFeatures::getDLoop

(

int

)

BioFTKSingleDSegment BioFeatures::getDSegment

(

int

)

BioFTKSingleEnhancer BioFeatures::getEnhancer

(

int

)

BioFTKSingleExon BioFeatures::getExon

(

int

)

BioFTKSingleGap BioFeatures::getGap

(

int

)

BioFTKSingleGCSignal BioFeatures::getGCSignal

(

int

)

BioFTKSingleGene BioFeatures::getGene

(

int

)

BioFTKSingleIDna BioFeatures::getIDna

(

int

)

BioFTKSingleIntron BioFeatures::getIntron

(

int

)

BioFTKSingleJSegment BioFeatures::getJSegment

(

int

)

BioFTKSingleLtr BioFeatures::getLtr

(

int

)

BioFTKSingleMatPeptide BioFeatures::getMatPeptide

(

int

)

BioFTKSingleMiscBinding BioFeatures::getMiscBinding

(

int

)

BioFTKSingleMiscDifference BioFeatures::getMiscDifference

(

int

)

BioFTKSingleMiscFeature BioFeatures::getMiscFeature

(

int

)

BioFTKSingleMiscRecomb BioFeatures::getMiscRecomb

(

int

)

BioFTKSingleMiscRna BioFeatures::getMiscRna

(

int

)

BioFTKSingleMiscSignal BioFeatures::getMiscSignal

(

int

)

BioFTKSingleMiscStructure BioFeatures::getMiscStructure

(

int

)

BioFTKSingleModifiedBase BioFeatures::getModifiedBase

(

int

)

BioFTKSingleMRna BioFeatures::getMRna

(

int

)

BioFTKSingleNRegion BioFeatures::getNRegion

(

int

)

int BioFeatures::getNumberOf3PrimeClips

(

)

int BioFeatures::getNumberOf3PrimeUtrs

(

)

int BioFeatures::getNumberOf5PrimeClips

(

)

int BioFeatures::getNumberOf5PrimeUtrs

(

)

int BioFeatures::getNumberOf_10Signals

(

)

int BioFeatures::getNumberOf_35Signals

(

)

int BioFeatures::getNumberOf_s

(

)

int BioFeatures::getNumberOfAttenuators

(

)

int BioFeatures::getNumberOfCAATSignals

(

)

int BioFeatures::getNumberOfCdss

(

)

int BioFeatures::getNumberOfConflicts

(

)

int BioFeatures::getNumberOfCRegions

(

)

int BioFeatures::getNumberOfDLoops

(

)

int BioFeatures::getNumberOfDSegments

(

)

int BioFeatures::getNumberOfEnhancers

(

)

int BioFeatures::getNumberOfExons

(

)

int BioFeatures::getNumberOfGaps

(

)

int BioFeatures::getNumberOfGCSignals

(

)

int BioFeatures::getNumberOfGenes

(

)

int BioFeatures::getNumberOfIDnas

(

)

int BioFeatures::getNumberOfIntrons

(

)

int BioFeatures::getNumberOfJSegments

(

)

int BioFeatures::getNumberOfLtrs

(

)

int BioFeatures::getNumberOfMatPeptides

(

)

int BioFeatures::getNumberOfMiscBindings

(

)

int BioFeatures::getNumberOfMiscDifferences

(

)

int BioFeatures::getNumberOfMiscFeatures

(

)

int BioFeatures::getNumberOfMiscRecombs

(

)

int BioFeatures::getNumberOfMiscRnas

(

)

int BioFeatures::getNumberOfMiscSignals

(

)

int BioFeatures::getNumberOfMiscStructures

(

)

int BioFeatures::getNumberOfModifiedBases

(

)

int BioFeatures::getNumberOfMRnas

(

)

int BioFeatures::getNumberOfNRegions

(

)

int BioFeatures::getNumberOfOldSequences

(

)

int BioFeatures::getNumberOfOperons

(

)

int BioFeatures::getNumberOfOriTs

(

)

int BioFeatures::getNumberOfPolyASignals

(

)

int BioFeatures::getNumberOfPolyASites

(

)

int BioFeatures::getNumberOfPrecursorRnas

(

)

int BioFeatures::getNumberOfPrimerBinds

(

)

int BioFeatures::getNumberOfPrimTranscripts

(

)

int BioFeatures::getNumberOfPromoters

(

)

int BioFeatures::getNumberOfProteinBinds

(

)

int BioFeatures::getNumberOfRbs

(

)

int BioFeatures::getNumberOfRepeatRegions

(

)

int BioFeatures::getNumberOfRepeatUnits

(

)

int BioFeatures::getNumberOfRepOrigins

(

)

int BioFeatures::getNumberOfRRnas

(

)

int BioFeatures::getNumberOfSatellites

(

)

int BioFeatures::getNumberOfSCRnas

(

)

int BioFeatures::getNumberOfSigPeptides

(

)

int BioFeatures::getNumberOfSNORnas

(

)

int BioFeatures::getNumberOfSNRnas

(

)

int BioFeatures::getNumberOfSources

(

)

int BioFeatures::getNumberOfSRegions

(

)

int BioFeatures::getNumberOfStemLoops

(

)

int BioFeatures::getNumberOfSts

(

)

int BioFeatures::getNumberOfTATASignals

(

)

int BioFeatures::getNumberOfTerminators

(

)

int BioFeatures::getNumberOfTransitPeptides

(

)

int BioFeatures::getNumberOfTRnas

(

)

int BioFeatures::getNumberOfUnsures

(

)

int BioFeatures::getNumberOfVariations

(

)

int BioFeatures::getNumberOfVRegions

(

)

int BioFeatures::getNumberOfVSegments

(

)

BioFTKSingleOldSequence BioFeatures::getOldSequence

(

int

)

BioFTKSingleOperon BioFeatures::getOperon

(

int

)

BioFTKSingleOriT BioFeatures::getOriT

(

int

)

BioFTKSinglePolyASignal BioFeatures::getPolyASignal

(

int

)

BioFTKSinglePolyASite BioFeatures::getPolyASite

(

int

)

BioFTKSinglePrecursorRna BioFeatures::getPrecursorRna

(

int

)

BioFTKSinglePrimerBind BioFeatures::getPrimerBind

(

int

)

BioFTKSinglePrimTranscript BioFeatures::getPrimTranscript

(

int

)

BioFTKSinglePromoter BioFeatures::getPromoter

(

int

)

BioFTKSingleProteinBind BioFeatures::getProteinBind

(

int

)

BioFTKSingleRbs BioFeatures::getRbs

(

int

)

BioFTKSingleRepeatRegion BioFeatures::getRepeatRegion

(

int

)

BioFTKSingleRepeatUnit BioFeatures::getRepeatUnit

(

int

)

BioFTKSingleRepOrigin BioFeatures::getRepOrigin

(

int

)

BioFTKSingleRRna BioFeatures::getRRna

(

int

)

BioFTKSingleSatellite BioFeatures::getSatellite

(

int

)

BioFTKSingleSCRna BioFeatures::getSCRna

(

int

)

BioFTKSingleSigPeptide BioFeatures::getSigPeptide

(

int

)

BioFTKSingleSNORna BioFeatures::getSNORna

(

int

)

BioFTKSingleSNRna BioFeatures::getSNRna

(

int

)

BioFTKSingleSource BioFeatures::getSource

(

int

)

BioFTKSingleSRegion BioFeatures::getSRegion

(

int

)

BioFTKSingleStemLoop BioFeatures::getStemLoop

(

int

)

BioFTKSingleSts BioFeatures::getSts

(

int

)

BioFTKSingleTATASignal BioFeatures::getTATASignal

(

int

)

BioFTKSingleTerminator BioFeatures::getTerminator

(

int

)

BioFTKSingleTransitPeptide BioFeatures::getTransitPeptide

(

int

)

BioFTKSingleTRna BioFeatures::getTRna

(

int

)

BioFTKSingleUnsure BioFeatures::getUnsure

(

int

)

BioFTKSingleVariation BioFeatures::getVariation

(

int

)

BioFTKSingleVRegion BioFeatures::getVRegion

(

int

)

BioFTKSingleVSegment BioFeatures::getVSegment

(

int

)

void BioFeatures::setFeatures

(

vector< string >

)

void BioFeatures::showBioFeatures	(	ostream &	= cout,
		string	st = " "
	)

void BioFeatures::showCds	(	int	,
		ostream &	os = cout
	)

void BioFeatures::showFeatureKeys

(

ostream &

= cout

)

---

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

• BioFeatures.h