dnamisc.cc File Reference

#include "dnamisc.hh"
#include "antonie.hh"
#include <vector>
#include <stdexcept>
#include <math.h>
#include <boost/lexical_cast.hpp>

Functions
double	getGCContent (const std::string &str)
	returns GC fraction of nucleotides in str
double	qToErr (unsigned int i)
	convert a Sanger Q-score into an error probability. Uses a cache to be fast.
uint32_t	kmerMapper (const std::string &str, int offset, int unsigned len)
	maps 'len' nucleotides from 'str' at offset offset to a 32 bit string. At most 16 nuclotides therefore!

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Function Documentation

double getGCContent

(

const std::string &

str

)

returns GC fraction of nucleotides in str

uint32_t kmerMapper	(	const std::string &	str,
		int	offset,
		int unsigned	len
	)

maps 'len' nucleotides from 'str' at offset offset to a 32 bit string. At most 16 nuclotides therefore!

double qToErr

(

unsigned int

i

)

convert a Sanger Q-score into an error probability. Uses a cache to be fast.