testExon.cpp File Reference

#include "GenModel.h"
#include "TranscriptExon.h"
#include "Range.h"
#include "RNAModel.h"
#include "Coverdepth.h"
#include <cstring>
#include <iostream>
#include <fstream>

Functions
void	testIntersect ()
void	testOverlap ()
void	testRange ()
void	testOperator ()
void	testsubchain ()
void	testmodel ()
void	testBaseProfile (const string &covstr, int dx)
void	sumnum (const vector< int > &A, vector< int > &B)
void	sumnum7 (const vector< int > &A, vector< int > &B)
void	sumnumN (const vector< int > &A, vector< int > &B, int w)
void	writeToFile (const int *num, int L, int B, const string &file)
void	testDip (const string &covstrfile, int substart, int subend)
void	testAdvance ()
int	main (int argc, char *argv[])

---

Function Documentation

int main	(	int	argc,
		char *	argv[]
	)

References testIntersect().

void sumnum	(	const vector< int > &	A,
		vector< int > &	B
	)

void sumnum7	(	const vector< int > &	A,
		vector< int > &	B
	)

void sumnumN	(	const vector< int > &	A,
		vector< int > &	B,
		int	w
	)

w is odd number 5, 7, 9, 11, ...

References delta().

void testAdvance

(

)

References Noschain::advancePosOnExon(), Noschain::retreatPosOnExon(), and Noschain::reverse().

void testBaseProfile	(	const string &	covstr,
		int	dx
	)

derivative

References Coverdepth::begin(), Coverdepth::derivative(), Coverdepth::findDip(), ifstream(), Coverdepth::length(), sumNumber(), Coverdepth::toPlot(), and writeToFile().

void testDip	(	const string &	covstrfile,
		int	substart,
		int	subend
	)

References ifstream(), Dip::isGood(), and Coverdepth::searchDip().

void testIntersect

(

)

References Noschain::commonIntrons(), and Noschain::exonIntersectLength().

Referenced by main().

void testmodel

(

)

References mRNAModel::show().

void testOperator

(

)

References Noschain::compareByDirection(), and Noschain::show().

void testOverlap

(

)

References Coverdepth::append(), Noschain::append(), Noschain::compareChainAndFix(), Noschain::exonContain(), Noschain::exonOverlapLength(), and Coverdepth::exons().

void testRange

(

)

References Range::contain().

void testsubchain

(

)

References Coverdepth::exons(), Noschain::show(), Noschain::subchainAfterPoint(), and Noschain::subchainBeforePoint().

void writeToFile	(	const int *	num,
		int	L,
		int	B,
		const string &	file
	)

Referenced by testBaseProfile().