Coverdepth.h File Reference

#include "GenModel.h"
#include <iostream>
#include <cassert>
#include <limits>

Go to the source code of this file.

Classes
class	NegativeCoverage
class	Dip
class	RightDropoff
class	LeftDropoff
class	Coverdepth
Functions
void	computeDerivative (const int *in, int *out, int L, int dx=1) throw (NegativeCoverage)
void	sumNumber (const int *A, int *&B, int L, int w)

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Function Documentation

void computeDerivative	(	const int *	in,
		int *	out,
		int	L,
		int	dx = 1
	)			throw (NegativeCoverage)

computes integer derivative dx determins the distance to use for X. Larger x tends to supress noise if there is a trend. out must have the same or longer length as in

References L.

Referenced by Coverdepth::derivative(), Coverdepth::findDip(), and Coverdepth::searchDip().

void sumNumber	(	const int *	A,
		int *&	B,
		int	L,
		int	w
	)

w > 1 A and B should have the same length L elements B has memory allocated same or longer

References delta().

Referenced by testBaseProfile().